CmoCh01G009110 (gene) Cucurbita moschata (Rifu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmoCh01G009110
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu))
Description	Splicing factor 3B subunit 4
Location	Cmo_Chr01 : 5134195 .. 5136520 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonfive_prime_UTRCDS

Hold the cursor over a type above to highlight its positions in the sequence below.

AATACAGGTCAATCGGCACACTGACTTAGCTGTCGTTTCTCTCTCTTGTTTTCTGAAACTTAGGGTTAGGGTTTTGCATCTGAACTCGCAGAACAATCATGTCAGGAAGATCAAATGGTTGCACTATTTACATAGGTTTGTTCGTTGTTATCTCTCTTCTTCATCTTAATTCCTGTTTTCTCTTTCCTATTTCGTTTAATTTCTTCGTTTTCCTTTCATCAGGATTCTGTTCTTTGCGTTTTAAGCTATGTTTTTACTTCCTTCCTTCCGTGAAGTTCCGTATGTAAATTAGGCCTTTCGGTGGTGGATTTTCCTAAGAATTGTGTTTATTTCCTTCTATTATGTGCTACCAATGGATGTATAGGACATAATGATATATTCATCGATTCTCTTACAAAGCTCTGCTTTGATTTTCTTTGGTGGTTGAACAGAAAGGATTGGATCGTGTGCTGGATTTCTTCCTCCCCAACTTTTTTGCTCTCTTTTAAATGCGTTTGATTCCTGTTTATAGCATAGTTGATTTGATAAAGCTAAAAAGCATACTTGATTTGCTGCTTGTGGGGGGAAGAAGATTGGAAGTTGGCCTTATGTTGTGTTTGTTTCACTTAGATCTCTTAGTTAAATTTCATTTATGCTTAACTGGTTAAATCTCGATTTCACTTTGCCCACCATTTTTTATCTGCTTCTATGTAGATTTTCCTCTTATTTCTCTAATAACTGGATACTCTGCGCATGTATTCTTCCGGGGAAATTTTCTTCACCCCTCTTATCTTCTGATACGGTATCATACATTAAATTTTAAGGATGCAGCCATCCTCTTACGGTTTAGATGCTAGCTACATCTTCCTCTGAGTCTGATTTTGTTACTCTCCGCTTTCTTTAGGTAATTTGGATGAAAGGGTAAGTGATAGGGTTCTGTATGACATTCTAATTCAAGCTGGGCGGGTAGTGGACTTGCACATTCCTCGTGACAAGGAATCCGGCAGGCCCAGGGGTTATGCTTTTGCAGAATATGAAAATGAGGAGATTACCAACTATGCTGTTAAGCTTTTCTCTGGTCTCGTGACTCTACATAATCGTACCCTAAAGTTTGCAGTATGTTATTAATTTTTTCTTTCTCAACGCAAATTCTTCATGTTTTCTTTTATCTTGGTTTTTCTTGATCAAATTTGTTTCCTCACTTATACATGTTTTGTTTTTATATTAAAGTTTCATGTACTAAGTATATATTAATTGGTGAAGTTATCTTTGTAACAATTTAAAATAATCTAAAAATTGTATTCCTTCATATGCCTTATGTGGCATATTGCCTAACTTTTCTAAAGTTTTCGAACCACATCCCAATTATACCTATTTTTTCTAGTTATTTACAAATCATAGTTTGCATTTAGAAACAACCTTATGTCATCATAATGGGAAGAACCAAGATAATTCATGGATCAAACGTCATAGTTTATCTCACAGTGATAGACTTAATCTAGTTTAGTTTATATCACCACAAGTTTAAGTGACGAACTAAAACATTCTTGAAAAACCAAAAACAAGTTTGAACATATAATTTCATATATTAAAATGATATCTATTAGTTTTCTATAAAGTTGTATCTTTTAAGTCTTATTTTGGACAGAATAGTAGCAATATAAACAACAATGGAGGGGAACATAGTGATATAAAGTTTCCTTTTCTTTTATATTTTAATAGATGATATTTTTTTATACACACTTATATACTGTGCTGTCTCGTATTTCCAATTTTGTAATCAGACGACTGTGCAATCTTCTTGCATCAGTTTTGATTGTGTGGTGAGTTTTAAAGTTATGGGAATGATGCATAATTTTTGACTTGCAAACAGGTATCTGGGCAAGACAAGCCTTCACCTAGTAGTAGTGCAATCACCTCATCATCAAATATATCTCATAAATCAAGGTCGCAGATTGTTCCAGGTTATTCTAATGAAATATCTTCATATTCCAATCGCTTGTCAAACTCGTGCAGGTTTTCTGCATACCCAGAGAACCATGTAGAAGGTGATTTTCCTGATTTTCCTTTATTTGTCTTTGTTTTGTTAGTTTGCTAAGAAGTTGTGTATGCTTTCACGTGCCTTTCCTGCATTGGTTCAACGAATCTGTATTTCTTTTATTCAGCGCCTCCTTACCCTGGGTTAGTTAACCAATCTAATGGGTATGGATCAAATTCGGATCACCACAATAACCAATACAGTCAGAGATATTCTGGGACAAATTTGGATAGCTTTAACCATCCTAAATCACGCCGCCATGATACGAGTTATCCAGTATACTATCCTCCTTATGAACTTTTGAACTAA

mRNA sequence

AATACAGGTCAATCGGCACACTGACTTAGCTGTCGTTTCTCTCTCTTGTTTTCTGAAACTTAGGGTTAGGGTTTTGCATCTGAACTCGCAGAACAATCATGTCAGGAAGATCAAATGGTTGCACTATTTACATAGGTAATTTGGATGAAAGGGTAAGTGATAGGGTTCTGTATGACATTCTAATTCAAGCTGGGCGGGTAGTGGACTTGCACATTCCTCGTGACAAGGAATCCGGCAGGCCCAGGGGTTATGCTTTTGCAGAATATGAAAATGAGGAGATTACCAACTATGCTGTTAAGCTTTTCTCTGGTCTCGTGACTCTACATAATCGTACCCTAAAGTTTGCAGTATCTGGGCAAGACAAGCCTTCACCTAGTAGTAGTGCAATCACCTCATCATCAAATATATCTCATAAATCAAGGTCGCAGATTGTTCCAGGTTATTCTAATGAAATATCTTCATATTCCAATCGCTTGTCAAACTCGTGCAGGTTTTCTGCATACCCAGAGAACCATGTAGAAGCGCCTCCTTACCCTGGGTTAGTTAACCAATCTAATGGGTATGGATCAAATTCGGATCACCACAATAACCAATACAGTCAGAGATATTCTGGGACAAATTTGGATAGCTTTAACCATCCTAAATCACGCCGCCATGATACGAGTTATCCAGTATACTATCCTCCTTATGAACTTTTGAACTAA

Coding sequence (CDS)

ATGTCAGGAAGATCAAATGGTTGCACTATTTACATAGGTAATTTGGATGAAAGGGTAAGTGATAGGGTTCTGTATGACATTCTAATTCAAGCTGGGCGGGTAGTGGACTTGCACATTCCTCGTGACAAGGAATCCGGCAGGCCCAGGGGTTATGCTTTTGCAGAATATGAAAATGAGGAGATTACCAACTATGCTGTTAAGCTTTTCTCTGGTCTCGTGACTCTACATAATCGTACCCTAAAGTTTGCAGTATCTGGGCAAGACAAGCCTTCACCTAGTAGTAGTGCAATCACCTCATCATCAAATATATCTCATAAATCAAGGTCGCAGATTGTTCCAGGTTATTCTAATGAAATATCTTCATATTCCAATCGCTTGTCAAACTCGTGCAGGTTTTCTGCATACCCAGAGAACCATGTAGAAGCGCCTCCTTACCCTGGGTTAGTTAACCAATCTAATGGGTATGGATCAAATTCGGATCACCACAATAACCAATACAGTCAGAGATATTCTGGGACAAATTTGGATAGCTTTAACCATCCTAAATCACGCCGCCATGATACGAGTTATCCAGTATACTATCCTCCTTATGAACTTTTGAACTAA

Homology

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BLAST of CmoCh01G009110 vs. Swiss-Prot
Match: SF3B4_MOUSE (Splicing factor 3B subunit 4 OS=Mus musculus GN=Sf3b4 PE=1 SV=1)

HSP 1 Score: 75.5 bits (184), Expect = 7.5e-13
Identity = 30/81 (37.04%), Postives = 60/81 (74.07%), Query Frame = 1


Query: 1  MSGRSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEE 60
          +S R+   T+Y+G LDE+VS+ +L+++ +QAG VV+ H+P+D+ +G+ +GY F E+ +EE
Sbjct: 6  ISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEE 65

Query: 61 ITNYAVKLFSGLVTLHNRTLK 82
            +YA+K+ + ++ L+ + ++
Sbjct: 66 DADYAIKIMN-MIKLYGKPIR 85

[Close]

BLAST of CmoCh01G009110 vs. Swiss-Prot
Match: SF3B4_RAT (Splicing factor 3B subunit 4 OS=Rattus norvegicus GN=Sf3b4 PE=2 SV=1)

HSP 1 Score: 75.5 bits (184), Expect = 7.5e-13
Identity = 30/81 (37.04%), Postives = 60/81 (74.07%), Query Frame = 1


Query: 1  MSGRSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEE 60
          +S R+   T+Y+G LDE+VS+ +L+++ +QAG VV+ H+P+D+ +G+ +GY F E+ +EE
Sbjct: 6  ISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEE 65

Query: 61 ITNYAVKLFSGLVTLHNRTLK 82
            +YA+K+ + ++ L+ + ++
Sbjct: 66 DADYAIKIMN-MIKLYGKPIR 85

[Close]

BLAST of CmoCh01G009110 vs. Swiss-Prot
Match: SF3B4_HUMAN (Splicing factor 3B subunit 4 OS=Homo sapiens GN=SF3B4 PE=1 SV=1)

HSP 1 Score: 75.5 bits (184), Expect = 7.5e-13
Identity = 30/81 (37.04%), Postives = 60/81 (74.07%), Query Frame = 1


Query: 1  MSGRSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEE 60
          +S R+   T+Y+G LDE+VS+ +L+++ +QAG VV+ H+P+D+ +G+ +GY F E+ +EE
Sbjct: 6  ISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEE 65

Query: 61 ITNYAVKLFSGLVTLHNRTLK 82
            +YA+K+ + ++ L+ + ++
Sbjct: 66 DADYAIKIMN-MIKLYGKPIR 85

[Close]

BLAST of CmoCh01G009110 vs. Swiss-Prot
Match: SAP49_SCHPO (Spliceosome-associated protein 49 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=sap49 PE=3 SV=2)

HSP 1 Score: 72.0 bits (175), Expect = 8.3e-12
Identity = 32/86 (37.21%), Postives = 56/86 (65.12%), Query Frame = 1


Query: 4  RSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEEITN 63
          R+   TIY+GNLDE+V+D +L+++ +QAG VV++HIPRD+      G+ F E+ +E+   
Sbjct: 7  RNQDATIYLGNLDEKVTDSILFELCLQAGPVVNIHIPRDRVRNSHNGFGFCEFLHEQDVE 66

Query: 64 YAVKLFSGLVTLHNRTLKFAVSGQDK 90
          YA ++ +  V L  + ++   + QD+
Sbjct: 67 YACQILN-QVKLFGKPIRVNRASQDR 91

[Close]

BLAST of CmoCh01G009110 vs. Swiss-Prot
Match: SF3B4_CAEEL (Splicing factor 3B subunit 4 OS=Caenorhabditis elegans GN=sap-49 PE=1 SV=2)

HSP 1 Score: 71.6 bits (174), Expect = 1.1e-11
Identity = 28/78 (35.90%), Postives = 56/78 (71.79%), Query Frame = 1


Query: 4  RSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEEITN 63
          R+   TIY+G LDE+VS+ +L+++++QAG VV +++P+D+ +   +G+ F E+  EE  +
Sbjct: 9  RNQDATIYVGGLDEKVSESILWELMVQAGPVVSVNMPKDRVTANHQGFGFVEFMGEEDAD 68

Query: 64 YAVKLFSGLVTLHNRTLK 82
          YA+K+ + ++ L+ + +K
Sbjct: 69 YAIKILN-MIKLYGKPIK 85

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BLAST of CmoCh01G009110 vs. TrEMBL
Match: A0A0A0KXV1_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_5G648670 PE=4 SV=1)

HSP 1 Score: 286.2 bits (731), Expect = 3.1e-74
Identity = 147/192 (76.56%), Postives = 162/192 (84.38%), Query Frame = 1


Query: 1   MSGRSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEE 60
           MSGRSNGCTIYIGNLDE+VSDRVLYDILIQAGRVVDLHIPRDKESG+P+G+AFAEYE+EE
Sbjct: 1   MSGRSNGCTIYIGNLDEKVSDRVLYDILIQAGRVVDLHIPRDKESGKPKGFAFAEYESEE 60

Query: 61  ITNYAVKLFSGLVTLHNRTLKFAVSGQDKPSPSSSAITSSSNISHKSRSQIVPGYSNEIS 120
           I NYAVKLFSGLV LH RTLKFAVSGQDKPSP S+AITSSS              S+EIS
Sbjct: 61  IANYAVKLFSGLVNLHKRTLKFAVSGQDKPSPGSNAITSSSR-------------SHEIS 120

Query: 121 SYSNRLSNSCRFSAYPENHVEAPPYPGLVNQSNGYGSNSDHHNNQYSQRYSGTNLDSFNH 180
            YSNR S SCRF  YPENH+EA   PGLVNQ NGYGS+ D++N +YSQRYSGTNLDSFN 
Sbjct: 121 QYSNRFSPSCRFPTYPENHLEALLNPGLVNQFNGYGSHLDNYNKEYSQRYSGTNLDSFNQ 179

Query: 181 PKSRRHDTSYPV 193
           PKSRRHD+S+P+
Sbjct: 181 PKSRRHDSSFPM 179

[Close]

BLAST of CmoCh01G009110 vs. TrEMBL
Match: W9SHM1_9ROSA (Splicing factor 3B subunit 4 OS=Morus notabilis GN=L484_012633 PE=4 SV=1)

HSP 1 Score: 219.2 bits (557), Expect = 4.7e-54
Identity = 123/197 (62.44%), Postives = 145/197 (73.60%), Query Frame = 1


Query: 1   MSGRSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEE 60
           MSG SN  T+YIGNLDERVSDRVLYDILIQAGRVVDL+IPRDKE+ +P+GYAFAEYE EE
Sbjct: 1   MSGSSNS-TVYIGNLDERVSDRVLYDILIQAGRVVDLYIPRDKETEKPKGYAFAEYETEE 60

Query: 61  ITNYAVKLFSGLVTLHNRTLKFAVSGQDKPSPSSSAITSSSNISHKSRSQIVPGYSNEIS 120
           I +YAVKLFSGLVTL+NRTLKFA+SGQDK + +   I+ +SN  HK RS  +P    E  
Sbjct: 61  IADYAVKLFSGLVTLYNRTLKFAISGQDKLN-TPPGISPTSNAPHKPRSNPIPINETE-- 120

Query: 121 SYSNRLSNSCRFSAYPENHVEAPPYPGLVNQSNGYGSNSDHHNNQYSQRYSGTNLDSFNH 180
               R   S RFS++P NH +APP PG+   SNGYGS  D  N +YS+R  G  LDS   
Sbjct: 121 ----RTLASSRFSSHPLNHSQAPPPPGVNIHSNGYGSPYDGKNFEYSRRVFGATLDSIGR 180

Query: 181 PKSRRHDTSYPVYYPPY 198
            +SRR+DTS P+ YPPY
Sbjct: 181 SRSRRYDTSDPISYPPY 189

[Close]

BLAST of CmoCh01G009110 vs. TrEMBL
Match: D7SN08_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VIT_18s0089g00220 PE=4 SV=1)

HSP 1 Score: 214.5 bits (545), Expect = 1.2e-52
Identity = 117/197 (59.39%), Postives = 145/197 (73.60%), Query Frame = 1


Query: 1   MSGRSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEE 60
           MS +S GC++YIGNLDERVSDRVLYDILIQAGRVVDL+IPRDKE+ RP+G+AFAEYE EE
Sbjct: 1   MSAKS-GCSVYIGNLDERVSDRVLYDILIQAGRVVDLYIPRDKETDRPKGFAFAEYETEE 60

Query: 61  ITNYAVKLFSGLVTLHNRTLKFAVSGQDKPSPSSSAITSSSNISHKSRSQIVPGYSNEIS 120
           I +YAVKLFSGLVTL+NRTLKFA+SGQDK  PSS+AIT +SN S + +   VP  + E S
Sbjct: 61  IADYAVKLFSGLVTLYNRTLKFAISGQDK--PSSAAITPTSNSSLEPKPHPVPFNNMENS 120

Query: 121 SYSNRLSNSCRFSAYPENHVEAPPYPGLVNQSNGYGSNSDHHNNQYSQRYSGTNLDSFNH 180
            +S  L   CR +A+P N+ + P     ++Q N Y S  D H+  YS+R  G  LDS + 
Sbjct: 121 QHSMGLRTPCRLAAHPVNYAQVPASSDTLHQPNRYSSQLDGHSYDYSRRVFGATLDSISR 180

Query: 181 PKSRRHDTSYPVYYPPY 198
            +SR HD+S P+ YP Y
Sbjct: 181 TRSRYHDSSNPITYPSY 194

[Close]

BLAST of CmoCh01G009110 vs. TrEMBL
Match: Q2I310_VITPS (RNA recognition motif-containing protein OS=Vitis pseudoreticulata PE=2 SV=1)

HSP 1 Score: 212.2 bits (539), Expect = 5.7e-52
Identity = 116/197 (58.88%), Postives = 145/197 (73.60%), Query Frame = 1


Query: 1   MSGRSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEE 60
           MS +S GC++YIGNLDERVSDRVLYDILIQAGRVVDL+IPRDKE+ RP+G+AFAEYE EE
Sbjct: 1   MSAKS-GCSVYIGNLDERVSDRVLYDILIQAGRVVDLYIPRDKETDRPKGFAFAEYETEE 60

Query: 61  ITNYAVKLFSGLVTLHNRTLKFAVSGQDKPSPSSSAITSSSNISHKSRSQIVPGYSNEIS 120
           I +YAVKLFSGLVTL+NRTLKFA+SGQDK  PSS+AIT +SN S + +   VP  + E S
Sbjct: 61  IADYAVKLFSGLVTLYNRTLKFAISGQDK--PSSAAITPTSNSSLEPKPHPVPFNNMENS 120

Query: 121 SYSNRLSNSCRFSAYPENHVEAPPYPGLVNQSNGYGSNSDHHNNQYSQRYSGTNLDSFNH 180
            +S  L   CR +A+P N+ + P     ++Q N Y S  D H+  YS+R  G  LDS + 
Sbjct: 121 QHSMGLRTPCRLAAHPVNYAQVPASSDTLHQPNRYSSQLDGHSYDYSRRVFGATLDSISR 180

Query: 181 PKSRRHDTSYPVYYPPY 198
            +SR +D+S P+ YP Y
Sbjct: 181 TRSRYYDSSNPITYPSY 194

[Close]

BLAST of CmoCh01G009110 vs. TrEMBL
Match: M5VQ44_PRUPE (Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa011785mg PE=4 SV=1)

HSP 1 Score: 205.3 bits (521), Expect = 7.0e-50
Identity = 113/190 (59.47%), Postives = 142/190 (74.74%), Query Frame = 1


Query: 9   TIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEEITNYAVKL 68
           ++YIGNLDERVS+RVLYDILIQAGR+VDLHIPRDKE+ RP+GYAFAEYE+E+I  YAV+L
Sbjct: 8   SVYIGNLDERVSERVLYDILIQAGRLVDLHIPRDKETDRPKGYAFAEYESEDIAEYAVRL 67

Query: 69  FSGLVTLHNRTLKFAVSGQDKPSPSS-SAITSSSNISHKSRSQIVPGYSNEISSYSNRLS 128
           FSGLVTL+NRTLKFA+SG+DKPS ++ S + S+S+  HK RS   P  S EIS  S  LS
Sbjct: 68  FSGLVTLYNRTLKFAISGRDKPSHNTPSTVASASSFPHKLRSAPSPINSMEISPNSIGLS 127

Query: 129 NSCRFSAYPENHVEAPPYPGLVNQSNGYGSNSDHHNNQYSQRYSGTNLDSFNHPKSRRHD 188
              R S +P N+   P  PG+  QSNGYG  ++ +N +YS+R  G  LD+ +  +SRRHD
Sbjct: 128 TP-RISDFPLNYPPVPTPPGVNKQSNGYGLPNNGNNYEYSRRVIGATLDTISRSRSRRHD 187

Query: 189 TSYPVYYPPY 198
            S P+ YP Y
Sbjct: 188 MSNPISYPSY 196

[Close]

BLAST of CmoCh01G009110 vs. TAIR10
Match: AT4G10110.1 (AT4G10110.1 RNA-binding (RRM/RBD/RNP motifs) family protein)

HSP 1 Score: 169.9 bits (429), Expect = 1.6e-42
Identity = 99/190 (52.11%), Postives = 133/190 (70.00%), Query Frame = 1


Query: 1   MSGRSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEE 60
           MSG SN CT+YIGN+DERVSDRVLYDI+IQAGRV+DLHIPRDKE+ +P+G+AFAEYE EE
Sbjct: 1   MSGTSN-CTVYIGNVDERVSDRVLYDIMIQAGRVIDLHIPRDKETDKPKGFAFAEYETEE 60

Query: 61  ITNYAVKLFSGLVTLHNRTLKFAVSGQDKPSPSSSAITSSSNISHKSRSQIVPGYSNEIS 120
           I +YAVKLFSGLV+L+NRTLKFA+SGQDK        ++S+N  H++R Q +    ++ +
Sbjct: 61  IADYAVKLFSGLVSLYNRTLKFAISGQDKLQ------SNSANSGHRARPQSLAFEHSDRA 120

Query: 121 SYSNRLSNSCRF----SAYPENHVEAPPYPGLVNQSNGYGSNSDHHNNQYSQRYSGTNLD 180
           +Y +    S +     S  P ++ + PP PG+   SNG        + +YS+R  G+ LD
Sbjct: 121 AYHHLERFSSQLISPPSPLPLDYTQEPPPPGV---SNG-------ASLEYSRRVLGSALD 173

Query: 181 SFNHPKSRRH 187
           S NH + RR+
Sbjct: 181 SINHSRPRRY 173

[Close]

BLAST of CmoCh01G009110 vs. TAIR10
Match: AT2G18510.1 (AT2G18510.1 RNA-binding (RRM/RBD/RNP motifs) family protein)

HSP 1 Score: 74.7 bits (182), Expect = 7.2e-14
Identity = 30/88 (34.09%), Postives = 60/88 (68.18%), Query Frame = 1


Query: 4   RSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEEITN 63
           R+   T+Y+G LD ++S+ +L+++ +QAG VV++++P+D+ +   + Y F EY +EE  +
Sbjct: 21  RNQDATVYVGGLDAQLSEELLWELFVQAGPVVNVYVPKDRVTNLHQNYGFIEYRSEEDAD 80

Query: 64  YAVKLFSGLVTLHNRTLKFAVSGQDKPS 92
           YA+K+ + ++ LH + ++   + QDK S
Sbjct: 81  YAIKVLN-MIKLHGKPIRVNKASQDKKS 107

[Close]

BLAST of CmoCh01G009110 vs. TAIR10
Match: AT4G34110.1 (AT4G34110.1 poly(A) binding protein 2)

HSP 1 Score: 51.6 bits (122), Expect = 6.5e-07
Identity = 24/70 (34.29%), Postives = 38/70 (54.29%), Query Frame = 1


Query: 4   RSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEEITN 63
           RS    I+I NLDE +  + L+D     G +V   +  D  SG+ +GY F +Y NEE   
Sbjct: 120 RSGAGNIFIKNLDESIDHKALHDTFSSFGNIVSCKVAVDS-SGQSKGYGFVQYANEESAQ 179

Query: 64  YAVKLFSGLV 74
            A++  +G++
Sbjct: 180 KAIEKLNGML 188

[Close]

BLAST of CmoCh01G009110 vs. TAIR10
Match: AT5G64200.1 (AT5G64200.1 ortholog of human splicing factor SC35)

HSP 1 Score: 50.4 bits (119), Expect = 1.5e-06
Identity = 32/107 (29.91%), Postives = 57/107 (53.27%), Query Frame = 1


Query: 5   SNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEEITNY 64
           S+  ++ + N+  R +   LY +  + G+VVD+ IPRD+ +G  RG+AF  Y+ ++  + 
Sbjct: 13  SDTYSLLVLNITFRTTADDLYPLFAKYGKVVDVFIPRDRRTGDSRGFAFVRYKYKDEAHK 72

Query: 65  AVKLFSG-LVTLHNRTLKFAVSGQDKPSPSSSAITSSSNISHKSRSQ 111
           AV+   G +V     T++FA  G +    S   +      S +SRS+
Sbjct: 73  AVERLDGRVVDGREITVQFAKYGPNAEKISKGRVVEPPPKSRRSRSR 119

[Close]

BLAST of CmoCh01G009110 vs. TAIR10
Match: AT1G71800.1 (AT1G71800.1 cleavage stimulating factor 64)

HSP 1 Score: 48.1 bits (113), Expect = 7.2e-06
Identity = 20/59 (33.90%), Postives = 35/59 (59.32%), Query Frame = 1


Query: 2  SGRSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEE 61
          S  S    +++GN+    ++  L +I  + G VV   +  D+E+G+P+GY F EY++EE
Sbjct: 3  SSSSQRRCVFVGNIPYDATEEQLREICGEVGPVVSFRLVTDRETGKPKGYGFCEYKDEE 61

[Close]

BLAST of CmoCh01G009110 vs. NCBI nr
Match: gi|659119260|ref|XP_008459559.1| (PREDICTED: RNA-binding protein 7-like isoform X1 [Cucumis melo])

HSP 1 Score: 312.4 bits (799), Expect = 5.8e-82
Identity = 159/197 (80.71%), Postives = 173/197 (87.82%), Query Frame = 1


Query: 1   MSGRSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEE 60
           MSGRS GCTIY+GNLDERVSDRVLYDILIQAGRVVDLHIPRDKESG+P+G+AFAEYE+EE
Sbjct: 1   MSGRSKGCTIYVGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGKPKGFAFAEYESEE 60

Query: 61  ITNYAVKLFSGLVTLHNRTLKFAVSGQDKPSPSSSAITSSSNISHKSRSQIVPGYSNEIS 120
           I NYAVKLFSGLV LH RTLKFAVSGQDKPSP S+AITSS      SRSQIV GYSNEIS
Sbjct: 61  IANYAVKLFSGLVNLHKRTLKFAVSGQDKPSPVSNAITSS------SRSQIVSGYSNEIS 120

Query: 121 SYSNRLSNSCRFSAYPENHVEAPPYPGLVNQSNGYGSNSDHHNNQYSQRYSGTNLDSFNH 180
            YSNR S+SCRF  YPENH+EA   PGLVNQ NGYGS+ D++N +YSQRYSGTNLDSFN 
Sbjct: 121 QYSNRFSSSCRFPTYPENHLEALLNPGLVNQFNGYGSHLDNYNKEYSQRYSGTNLDSFNQ 180

Query: 181 PKSRRHDTSYPVYYPPY 198
           PKSRRHD+S+PV YPPY
Sbjct: 181 PKSRRHDSSFPVDYPPY 191

[Close]

BLAST of CmoCh01G009110 vs. NCBI nr
Match: gi|778707852|ref|XP_011656074.1| (PREDICTED: RNA-binding protein 7-like [Cucumis sativus])

HSP 1 Score: 295.8 bits (756), Expect = 5.6e-77
Identity = 152/197 (77.16%), Postives = 166/197 (84.26%), Query Frame = 1


Query: 1   MSGRSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEE 60
           MSGRSNGCTIYIGNLDE+VSDRVLYDILIQAGRVVDLHIPRDKESG+P+G+AFAEYE+EE
Sbjct: 1   MSGRSNGCTIYIGNLDEKVSDRVLYDILIQAGRVVDLHIPRDKESGKPKGFAFAEYESEE 60

Query: 61  ITNYAVKLFSGLVTLHNRTLKFAVSGQDKPSPSSSAITSSSNISHKSRSQIVPGYSNEIS 120
           I NYAVKLFSGLV LH RTLKFAVSGQDKPSP S+AITSSS              S+EIS
Sbjct: 61  IANYAVKLFSGLVNLHKRTLKFAVSGQDKPSPGSNAITSSSR-------------SHEIS 120

Query: 121 SYSNRLSNSCRFSAYPENHVEAPPYPGLVNQSNGYGSNSDHHNNQYSQRYSGTNLDSFNH 180
            YSNR S SCRF  YPENH+EA   PGLVNQ NGYGS+ D++N +YSQRYSGTNLDSFN 
Sbjct: 121 QYSNRFSPSCRFPTYPENHLEALLNPGLVNQFNGYGSHLDNYNKEYSQRYSGTNLDSFNQ 180

Query: 181 PKSRRHDTSYPVYYPPY 198
           PKSRRHD+S+PV YPPY
Sbjct: 181 PKSRRHDSSFPVDYPPY 184

[Close]

BLAST of CmoCh01G009110 vs. NCBI nr
Match: gi|659119268|ref|XP_008459563.1| (PREDICTED: splicing regulator RBM11-like isoform X1 [Cucumis melo])

HSP 1 Score: 289.3 bits (739), Expect = 5.3e-75
Identity = 150/200 (75.00%), Postives = 169/200 (84.50%), Query Frame = 1


Query: 1   MSGRSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEE 60
           MSG SN CT+Y+GNLDERVSDRVLYDILIQAGRVVDLHIPRDK+SG P+G+AFA YE+EE
Sbjct: 1   MSGGSNSCTVYVGNLDERVSDRVLYDILIQAGRVVDLHIPRDKDSGIPKGFAFAVYESEE 60

Query: 61  ITNYAVKLFSGLVTLHNRTLKFAVSGQDKPSPSSSAITSSSNISHKSRSQIVPGYSNEIS 120
           I NYAVKLFSGLV+LH+R LKFAVSGQDK SP++SA+TSSSN+SHKSRS    GYSNEIS
Sbjct: 61  IANYAVKLFSGLVSLHSRILKFAVSGQDKSSPTNSAVTSSSNVSHKSRSH---GYSNEIS 120

Query: 121 SYSNRLSNSCRFSAYPENHVEAPPYPGLVNQSNGYGSNSDHHNNQYSQRYSGTNLDSFNH 180
            YSN  S SCR   YPENHV+A  Y GLVNQ NGY S+ D++N +YSQRY GT LDSF  
Sbjct: 121 QYSNHPSTSCR--TYPENHVQALLYLGLVNQYNGYASHMDNYNKEYSQRYGGTTLDSFKQ 180

Query: 181 PKSRRHDTSYPVYYPPYELL 201
           PKSRR+ TSYPVYYP Y+LL
Sbjct: 181 PKSRRNVTSYPVYYPSYDLL 195

[Close]

BLAST of CmoCh01G009110 vs. NCBI nr
Match: gi|700197469|gb|KGN52646.1| (hypothetical protein Csa_5G648670 [Cucumis sativus])

HSP 1 Score: 286.2 bits (731), Expect = 4.5e-74
Identity = 147/192 (76.56%), Postives = 162/192 (84.38%), Query Frame = 1


Query: 1   MSGRSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEE 60
           MSGRSNGCTIYIGNLDE+VSDRVLYDILIQAGRVVDLHIPRDKESG+P+G+AFAEYE+EE
Sbjct: 1   MSGRSNGCTIYIGNLDEKVSDRVLYDILIQAGRVVDLHIPRDKESGKPKGFAFAEYESEE 60

Query: 61  ITNYAVKLFSGLVTLHNRTLKFAVSGQDKPSPSSSAITSSSNISHKSRSQIVPGYSNEIS 120
           I NYAVKLFSGLV LH RTLKFAVSGQDKPSP S+AITSSS              S+EIS
Sbjct: 61  IANYAVKLFSGLVNLHKRTLKFAVSGQDKPSPGSNAITSSSR-------------SHEIS 120

Query: 121 SYSNRLSNSCRFSAYPENHVEAPPYPGLVNQSNGYGSNSDHHNNQYSQRYSGTNLDSFNH 180
            YSNR S SCRF  YPENH+EA   PGLVNQ NGYGS+ D++N +YSQRYSGTNLDSFN 
Sbjct: 121 QYSNRFSPSCRFPTYPENHLEALLNPGLVNQFNGYGSHLDNYNKEYSQRYSGTNLDSFNQ 179

Query: 181 PKSRRHDTSYPV 193
           PKSRRHD+S+P+
Sbjct: 181 PKSRRHDSSFPM 179

[Close]

BLAST of CmoCh01G009110 vs. NCBI nr
Match: gi|778707844|ref|XP_011656072.1| (PREDICTED: RNA-binding protein 7-like isoform X1 [Cucumis sativus])

HSP 1 Score: 282.0 bits (720), Expect = 8.4e-73
Identity = 148/200 (74.00%), Postives = 169/200 (84.50%), Query Frame = 1


Query: 1   MSGRSNGCTIYIGNLDERVSDRVLYDILIQAGRVVDLHIPRDKESGRPRGYAFAEYENEE 60
           MSG SN CT+Y+GNLDERVSDRVLYDILIQAGRVVDLHIPRDK++G+P+G+AFA YE+EE
Sbjct: 1   MSGGSNACTVYVGNLDERVSDRVLYDILIQAGRVVDLHIPRDKDTGKPKGFAFAVYESEE 60

Query: 61  ITNYAVKLFSGLVTLHNRTLKFAVSGQDKPSPSSSAITSSSNISHKSRSQIVPGYSNEIS 120
           I NYAVKLFSGLV+LH+R LKFAVSGQDK SP++SAITSSSN+SHKSRS    GYSNEIS
Sbjct: 61  IANYAVKLFSGLVSLHSRILKFAVSGQDKSSPTNSAITSSSNVSHKSRSH---GYSNEIS 120

Query: 121 SYSNRLSNSCRFSAYPENHVEAPPYPGLVNQSNGYGSNSDHHNNQYSQRYSGTNLDSFNH 180
            YSN LS SCR   YPENHV+A  Y GLVNQ NGYGS+ D++N +YSQRY  T LDSF  
Sbjct: 121 QYSNHLSTSCR--TYPENHVQALLYHGLVNQYNGYGSHLDNYNKEYSQRYHATTLDSFKQ 180

Query: 181 PKSRRHDTSYPVYYPPYELL 201
           PKSR + T+YPVYY  Y+LL
Sbjct: 181 PKSRCYVTNYPVYY-TYDLL 194

The following BLAST results are available for this feature:

BLAST of CmoCh01G009110 vs. Swiss-Prot


Match Name	E-value	Identity	Description
SF3B4_MOUSE	7.5e-13	37.04	Splicing factor 3B subunit 4 OS=Mus musculus GN=Sf3b4 PE=1 SV=1	[more]
SF3B4_RAT	7.5e-13	37.04	Splicing factor 3B subunit 4 OS=Rattus norvegicus GN=Sf3b4 PE=2 SV=1	[more]
SF3B4_HUMAN	7.5e-13	37.04	Splicing factor 3B subunit 4 OS=Homo sapiens GN=SF3B4 PE=1 SV=1	[more]
SAP49_SCHPO	8.3e-12	37.21	Spliceosome-associated protein 49 OS=Schizosaccharomyces pombe (strain 972 / ATC...	[more]
SF3B4_CAEEL	1.1e-11	35.90	Splicing factor 3B subunit 4 OS=Caenorhabditis elegans GN=sap-49 PE=1 SV=2	[more]

BLAST of CmoCh01G009110 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0KXV1_CUCSA	3.1e-74	76.56	Uncharacterized protein OS=Cucumis sativus GN=Csa_5G648670 PE=4 SV=1	[more]
W9SHM1_9ROSA	4.7e-54	62.44	Splicing factor 3B subunit 4 OS=Morus notabilis GN=L484_012633 PE=4 SV=1	[more]
D7SN08_VITVI	1.2e-52	59.39	Putative uncharacterized protein OS=Vitis vinifera GN=VIT_18s0089g00220 PE=4 SV=...	[more]
Q2I310_VITPS	5.7e-52	58.88	RNA recognition motif-containing protein OS=Vitis pseudoreticulata PE=2 SV=1	[more]
M5VQ44_PRUPE	7.0e-50	59.47	Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa011785mg PE=4 SV=1	[more]

BLAST of CmoCh01G009110 vs. TAIR10


Match Name	E-value	Identity	Description
AT4G10110.1	1.6e-42	52.11	RNA-binding (RRM/RBD/RNP motifs) family protein	[more]
AT2G18510.1	7.2e-14	34.09	RNA-binding (RRM/RBD/RNP motifs) family protein	[more]
AT4G34110.1	6.5e-07	34.29	poly(A) binding protein 2	[more]
AT5G64200.1	1.5e-06	29.91	ortholog of human splicing factor SC35	[more]
AT1G71800.1	7.2e-06	33.90	cleavage stimulating factor 64	[more]

BLAST of CmoCh01G009110 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|659119260\|ref\|XP_008459559.1\|	5.8e-82	80.71	PREDICTED: RNA-binding protein 7-like isoform X1 [Cucumis melo]	[more]
gi\|778707852\|ref\|XP_011656074.1\|	5.6e-77	77.16	PREDICTED: RNA-binding protein 7-like [Cucumis sativus]	[more]
gi\|659119268\|ref\|XP_008459563.1\|	5.3e-75	75.00	PREDICTED: splicing regulator RBM11-like isoform X1 [Cucumis melo]	[more]
gi\|700197469\|gb\|KGN52646.1\|	4.5e-74	76.56	hypothetical protein Csa_5G648670 [Cucumis sativus]	[more]
gi\|778707844\|ref\|XP_011656072.1\|	8.4e-73	74.00	PREDICTED: RNA-binding protein 7-like isoform X1 [Cucumis sativus]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR000504	RRM_dom
IPR012677	Nucleotide-bd_a/b_plait_sf

Vocabulary: **Molecular Function**
Term	Definition
GO:0003676	nucleic acid binding
GO:0000166	nucleotide binding

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0008150	biological_process
cellular_component	GO:0005575	cellular_component
cellular_component	GO:0016021	integral component of membrane
molecular_function	GO:0003676	nucleic acid binding
molecular_function	GO:0000166	nucleotide binding
molecular_function	GO:0003723	RNA binding

Relationships

The following mRNA feature(s) are a part of this gene:


Feature Name	Unique Name	Type
CmoCh01G009110.1	CmoCh01G009110.1	mRNA

InterPro

Analysis Name: InterPro Annotations of Cucurbita moschata
Date Performed: 2017-05-19


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR000504	RNA recognition motif domain	PFAM	PF00076	RRM_1	coord: 10..81 score: 7.0
IPR000504	RNA recognition motif domain	SMART	SM00360	rrm1_1	coord: 9..83 score: 4.8
IPR000504	RNA recognition motif domain	PROFILE	PS50102	RRM	coord: 8..87 score: 14
IPR012677	Nucleotide-binding alpha-beta plait domain	GENE3D	G3DSA:3.30.70.330		coord: 8..85 score: 3.6
IPR012677	Nucleotide-binding alpha-beta plait domain	unknown	SSF54928	RNA-binding domain, RBD	coord: 5..85 score: 4.21
None	No IPR available	PANTHER	PTHR13798	RNA BINDING MOTIF RBM PROTEIN -RELATED	coord: 1..81 score: 5.4
None	No IPR available	PANTHER	PTHR13798:SF2	PROTEIN M01D7.9-RELATED	coord: 1..81 score: 5.4

Synteny

The following gene(s) are orthologous to this gene:


Gene	Orthologue	Organism	Block
CmoCh01G009110	Cucsa.237370	Cucumber (Gy14) v1	cgycmoB0661
CmoCh01G009110	CmaCh09G013000	Cucurbita maxima (Rimu)	cmacmoB054
CmoCh01G009110	CmaCh01G008680	Cucurbita maxima (Rimu)	cmacmoB468
CmoCh01G009110	Cla012477	Watermelon (97103) v1	cmowmB412
CmoCh01G009110	Cla012440	Watermelon (97103) v1	cmowmB411
CmoCh01G009110	Csa5G648670	Cucumber (Chinese Long) v2	cmocuB472
CmoCh01G009110	MELO3C022159	Melon (DHL92) v3.5.1	cmomeB375
CmoCh01G009110	ClCG08G001170	Watermelon (Charleston Gray)	cmowcgB429
CmoCh01G009110	ClCG08G000830	Watermelon (Charleston Gray)	cmowcgB430
CmoCh01G009110	CSPI05G30740	Wild cucumber (PI 183967)	cmocpiB476
CmoCh01G009110	Lsi08G001040	Bottle gourd (USVL1VR-Ls)	cmolsiB440
CmoCh01G009110	Cp4.1LG02g10920	Cucurbita pepo (Zucchini)	cmocpeB448
CmoCh01G009110	Cp4.1LG06g09810	Cucurbita pepo (Zucchini)	cmocpeB468
CmoCh01G009110	MELO3C033524.2	Melon (DHL92) v3.6.1	cmomedB431
CmoCh01G009110	CsaV3_5G039770	Cucumber (Chinese Long) v3	cmocucB0565
CmoCh01G009110	Cla97C08G145210	Watermelon (97103) v2	cmowmbB482
CmoCh01G009110	Cla97C08G145510	Watermelon (97103) v2	cmowmbB481
CmoCh01G009110	Bhi06G000179	Wax gourd	cmowgoB0553
CmoCh01G009110	CsGy5G030090	Cucumber (Gy14) v2	cgybcmoB611
CmoCh01G009110	Carg24120	Silver-seed gourd	carcmoB0930

The following gene(s) are paralogous to this gene:


Gene	Paralogue	Organism	Block
CmoCh01G009110	CmoCh09G012650	Cucurbita moschata (Rifu)	cmocmoB021

The following block(s) are covering this gene:


Gene	Organism	Block
CmoCh01G009110	Silver-seed gourd	carcmoB0230
CmoCh01G009110	Cucurbita maxima (Rimu)	cmacmoB056