Carg13926 (gene) Silver-seed gourd

NameCarg13926
Typegene
OrganismCucurbita argyrosperma (Silver-seed gourd)
DescriptionSm-like protein
LocationCucurbita_argyrosperma_scaffold_042 : 811913 .. 812379 (-)
The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideCDSexon
Hold the cursor over a type above to highlight its positions in the sequence below.
ATGATCGTTTCGTTCTATAGAGAAGGTTCTTGTACTACTTCGAGATGGTCGAAAGCTATTAGGAATTCTCCGGTCATTCGATCAATTTGGTATAGTTCTTCCTGAAATTTTATACAGTTTTAACATTCGCGTGGAGAACTAATTGTTTCTATGTTTCAGCAAATGCTGTTCTTGAAGGATCCTGTGAAAGAGTGATTGTTGGTGATCTTTACAGCGATATTCCTTTAGGTCTCTATGTAATTCGAGGCGAAAACGTCGTTTTACTGGGCGAGCTGGTAGGACAAAATCTTAGAGATTCACTTGTTTGTCTTCGTTATTTGTCTGTTAGCTGTCCAACCCTCTTAAAATTTTTGTTTTGGGCTTTATAGAACATGGAGAAAGAGGAGCTCCCTCCACACATGACTCATGTCTCTGCTGTGGAGATTAAAAGGGTAAGTGATGTTGACTCGTCCATTGGATTTCTTAAA

mRNA sequence

ATGATCGTTTCGTTCTATAGAGAAGTTTTAACATTCGCGTGGAGAACTAATTGTTTCTATGTTTCAGCAAATGCTGTTCTTGAAGGATCCTGTGAAAGAGTGATTGTTGGTGATCTTTACAGCGATATTCCTTTAGGTCTCTATGTAATTCGAGGCGAAAACGTCGTTTTACTGGGCGAGCTGAACATGGAGAAAGAGGAGCTCCCTCCACACATGACTCATGTCTCTGCTGTGGAGATTAAAAGGGTAAGTGATGTTGACTCGTCCATTGGATTTCTTAAA

Coding sequence (CDS)

ATGATCGTTTCGTTCTATAGAGAAGTTTTAACATTCGCGTGGAGAACTAATTGTTTCTATGTTTCAGCAAATGCTGTTCTTGAAGGATCCTGTGAAAGAGTGATTGTTGGTGATCTTTACAGCGATATTCCTTTAGGTCTCTATGTAATTCGAGGCGAAAACGTCGTTTTACTGGGCGAGCTGAACATGGAGAAAGAGGAGCTCCCTCCACACATGACTCATGTCTCTGCTGTGGAGATTAAAAGGGTAAGTGATGTTGACTCGTCCATTGGATTTCTTAAA

Protein sequence

MIVSFYREVLTFAWRTNCFYVSANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKRVSDVDSSIGFLK
BLAST of Carg13926 vs. NCBI nr
Match: XP_022964148.1 (sm-like protein LSM1B [Cucurbita moschata] >XP_022964149.1 sm-like protein LSM1B [Cucurbita moschata] >XP_022999982.1 sm-like protein LSM1B [Cucurbita maxima])

HSP 1 Score: 124.4 bits (311), Expect = 2.0e-25
Identity = 62/72 (86.11%), Postives = 63/72 (87.50%), Query Frame = 0

Query: 23  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR 82
           ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR
Sbjct: 44  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR 103

Query: 83  VSDVDSSIGFLK 95
               +     LK
Sbjct: 104 AQKAEREATDLK 115

BLAST of Carg13926 vs. NCBI nr
Match: XP_023515193.1 (sm-like protein LSM1B isoform X1 [Cucurbita pepo subsp. pepo] >XP_023515194.1 sm-like protein LSM1B isoform X2 [Cucurbita pepo subsp. pepo])

HSP 1 Score: 123.2 bits (308), Expect = 4.6e-25
Identity = 61/72 (84.72%), Postives = 63/72 (87.50%), Query Frame = 0

Query: 23  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR 82
           ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSA+EIKR
Sbjct: 44  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAMEIKR 103

Query: 83  VSDVDSSIGFLK 95
               +     LK
Sbjct: 104 AQKAEREATDLK 115

BLAST of Carg13926 vs. NCBI nr
Match: XP_022154301.1 (sm-like protein LSM1B [Momordica charantia])

HSP 1 Score: 122.1 bits (305), Expect = 1.0e-24
Identity = 60/72 (83.33%), Postives = 63/72 (87.50%), Query Frame = 0

Query: 23  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR 82
           ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGEL++EKEELPPHMTHVSAVEIKR
Sbjct: 44  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELDLEKEELPPHMTHVSAVEIKR 103

Query: 83  VSDVDSSIGFLK 95
               +     LK
Sbjct: 104 AQKAEREASDLK 115

BLAST of Carg13926 vs. NCBI nr
Match: XP_004141715.1 (PREDICTED: sm-like protein LSM1B [Cucumis sativus] >XP_008462280.1 PREDICTED: sm-like protein LSM1B [Cucumis melo] >XP_022954404.1 sm-like protein LSM1B [Cucurbita moschata] >XP_022954405.1 sm-like protein LSM1B [Cucurbita moschata] >XP_022992441.1 sm-like protein LSM1B [Cucurbita maxima] >XP_022992442.1 sm-like protein LSM1B [Cucurbita maxima] >XP_023547534.1 sm-like protein LSM1B [Cucurbita pepo subsp. pepo] >XP_023547535.1 sm-like protein LSM1B [Cucurbita pepo subsp. pepo] >KGN45472.1 hypothetical protein Csa_7G448830 [Cucumis sativus])

HSP 1 Score: 121.3 bits (303), Expect = 1.7e-24
Identity = 60/72 (83.33%), Postives = 63/72 (87.50%), Query Frame = 0

Query: 23  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR 82
           ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGEL++EKEELPPHMTHVSAVEIKR
Sbjct: 44  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELDLEKEELPPHMTHVSAVEIKR 103

Query: 83  VSDVDSSIGFLK 95
               +     LK
Sbjct: 104 AQKAEREATDLK 115

BLAST of Carg13926 vs. NCBI nr
Match: KDO64964.1 (hypothetical protein CISIN_1g0321082mg, partial [Citrus sinensis])

HSP 1 Score: 115.2 bits (287), Expect = 1.2e-22
Identity = 55/71 (77.46%), Postives = 64/71 (90.14%), Query Frame = 0

Query: 23 ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR 82
          ANAVLEG+CERVIVGDLY DIPLGLYVIRGENVVL+GEL++E++ELPPH+THVS  EIKR
Sbjct: 23 ANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDLERDELPPHLTHVSVAEIKR 82

Query: 83 VSDVDSSIGFL 94
          VS +  S+ FL
Sbjct: 83 VSALFFSLLFL 93

BLAST of Carg13926 vs. TAIR10
Match: AT3G14080.1 (Small nuclear ribonucleoprotein family protein)

HSP 1 Score: 103.6 bits (257), Expect = 6.8e-23
Identity = 50/72 (69.44%), Postives = 57/72 (79.17%), Query Frame = 0

Query: 23  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR 82
           ANAVLEG+CERVIVG+ Y DIPLGLYVIRGENVVL+GEL+ E+EELPPHM  VS  EIKR
Sbjct: 44  ANAVLEGACERVIVGEQYCDIPLGLYVIRGENVVLIGELDTEREELPPHMIRVSEAEIKR 103

Query: 83  VSDVDSSIGFLK 95
              V+     L+
Sbjct: 104 AQKVEREASELR 115

BLAST of Carg13926 vs. TAIR10
Match: AT1G19120.1 (Small nuclear ribonucleoprotein family protein)

HSP 1 Score: 96.3 bits (238), Expect = 1.1e-20
Identity = 48/72 (66.67%), Postives = 54/72 (75.00%), Query Frame = 0

Query: 23  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR 82
           ANAVLE + ERVIVGDLY DIPLGLY+IRGENVVL+GEL++EKEELP HM  V   EIKR
Sbjct: 44  ANAVLEEAYERVIVGDLYCDIPLGLYIIRGENVVLIGELDVEKEELPAHMVQVPEAEIKR 103

Query: 83  VSDVDSSIGFLK 95
               +     LK
Sbjct: 104 AQKAEKEEMLLK 115

BLAST of Carg13926 vs. Swiss-Prot
Match: sp|Q8LFL8|LSM1B_ARATH (Sm-like protein LSM1B OS=Arabidopsis thaliana OX=3702 GN=LSM1B PE=1 SV=1)

HSP 1 Score: 103.6 bits (257), Expect = 1.2e-21
Identity = 50/72 (69.44%), Postives = 57/72 (79.17%), Query Frame = 0

Query: 23  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR 82
           ANAVLEG+CERVIVG+ Y DIPLGLYVIRGENVVL+GEL+ E+EELPPHM  VS  EIKR
Sbjct: 44  ANAVLEGACERVIVGEQYCDIPLGLYVIRGENVVLIGELDTEREELPPHMIRVSEAEIKR 103

Query: 83  VSDVDSSIGFLK 95
              V+     L+
Sbjct: 104 AQKVEREASELR 115

BLAST of Carg13926 vs. Swiss-Prot
Match: sp|Q945P8|LSM1A_ARATH (Sm-like protein LSM1A OS=Arabidopsis thaliana OX=3702 GN=LSM1A PE=1 SV=1)

HSP 1 Score: 96.3 bits (238), Expect = 1.9e-19
Identity = 48/72 (66.67%), Postives = 54/72 (75.00%), Query Frame = 0

Query: 23  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR 82
           ANAVLE + ERVIVGDLY DIPLGLY+IRGENVVL+GEL++EKEELP HM  V   EIKR
Sbjct: 44  ANAVLEEAYERVIVGDLYCDIPLGLYIIRGENVVLIGELDVEKEELPAHMVQVPEAEIKR 103

Query: 83  VSDVDSSIGFLK 95
               +     LK
Sbjct: 104 AQKAEKEEMLLK 115

BLAST of Carg13926 vs. Swiss-Prot
Match: sp|Q8VC85|LSM1_MOUSE (U6 snRNA-associated Sm-like protein LSm1 OS=Mus musculus OX=10090 GN=Lsm1 PE=1 SV=1)

HSP 1 Score: 62.0 bits (149), Expect = 4.1e-09
Identity = 32/58 (55.17%), Postives = 41/58 (70.69%), Query Frame = 0

Query: 23 ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEI 81
          AN VL  + ER+ VG  Y DIP G++V+RGENVVLLGE+++EKE   P +  VS  EI
Sbjct: 39 ANLVLHQTVERIHVGKKYGDIPRGIFVVRGENVVLLGEIDLEKESDTP-LQQVSIEEI 95

BLAST of Carg13926 vs. Swiss-Prot
Match: sp|Q5E9Z8|LSM1_BOVIN (U6 snRNA-associated Sm-like protein LSm1 OS=Bos taurus OX=9913 GN=LSM1 PE=2 SV=1)

HSP 1 Score: 60.8 bits (146), Expect = 9.1e-09
Identity = 28/48 (58.33%), Postives = 36/48 (75.00%), Query Frame = 0

Query: 23 ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPP 71
          AN VL  + ER+ VG  Y DIP G++V+RGENVVLLGE+++EKE   P
Sbjct: 39 ANLVLHQTVERIHVGKKYGDIPRGIFVVRGENVVLLGEIDLEKESDTP 86

BLAST of Carg13926 vs. Swiss-Prot
Match: sp|O15116|LSM1_HUMAN (U6 snRNA-associated Sm-like protein LSm1 OS=Homo sapiens OX=9606 GN=LSM1 PE=1 SV=1)

HSP 1 Score: 60.8 bits (146), Expect = 9.1e-09
Identity = 28/48 (58.33%), Postives = 36/48 (75.00%), Query Frame = 0

Query: 23 ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPP 71
          AN VL  + ER+ VG  Y DIP G++V+RGENVVLLGE+++EKE   P
Sbjct: 39 ANLVLHQTVERIHVGKKYGDIPRGIFVVRGENVVLLGEIDLEKESDTP 86

BLAST of Carg13926 vs. TrEMBL
Match: tr|A0A1S3CGJ0|A0A1S3CGJ0_CUCME (sm-like protein LSM1B OS=Cucumis melo OX=3656 GN=LOC103500677 PE=4 SV=1)

HSP 1 Score: 121.3 bits (303), Expect = 1.1e-24
Identity = 60/72 (83.33%), Postives = 63/72 (87.50%), Query Frame = 0

Query: 23  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR 82
           ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGEL++EKEELPPHMTHVSAVEIKR
Sbjct: 44  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELDLEKEELPPHMTHVSAVEIKR 103

Query: 83  VSDVDSSIGFLK 95
               +     LK
Sbjct: 104 AQKAEREATDLK 115

BLAST of Carg13926 vs. TrEMBL
Match: tr|A0A0A0KAS4|A0A0A0KAS4_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_7G448830 PE=4 SV=1)

HSP 1 Score: 121.3 bits (303), Expect = 1.1e-24
Identity = 60/72 (83.33%), Postives = 63/72 (87.50%), Query Frame = 0

Query: 23  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR 82
           ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGEL++EKEELPPHMTHVSAVEIKR
Sbjct: 44  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELDLEKEELPPHMTHVSAVEIKR 103

Query: 83  VSDVDSSIGFLK 95
               +     LK
Sbjct: 104 AQKAEREATDLK 115

BLAST of Carg13926 vs. TrEMBL
Match: tr|A0A0D2QGC5|A0A0D2QGC5_GOSRA (Uncharacterized protein OS=Gossypium raimondii OX=29730 GN=B456_009G145700 PE=4 SV=1)

HSP 1 Score: 115.2 bits (287), Expect = 8.2e-23
Identity = 55/74 (74.32%), Postives = 62/74 (83.78%), Query Frame = 0

Query: 21 VSANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEI 80
          VSANAVLEG+CERVIVGDLY DIPLGLYVIRGENVVL+GEL++E+EELPPHMTHVS  EI
Sbjct: 14 VSANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDLEREELPPHMTHVSVAEI 73

Query: 81 KRVSDVDSSIGFLK 95
          +R    +     LK
Sbjct: 74 RRAQKAEREATDLK 87

BLAST of Carg13926 vs. TrEMBL
Match: tr|A0A067FC20|A0A067FC20_CITSI (Uncharacterized protein (Fragment) OS=Citrus sinensis OX=2711 GN=CISIN_1g0321082mg PE=4 SV=1)

HSP 1 Score: 115.2 bits (287), Expect = 8.2e-23
Identity = 55/71 (77.46%), Postives = 64/71 (90.14%), Query Frame = 0

Query: 23 ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR 82
          ANAVLEG+CERVIVGDLY DIPLGLYVIRGENVVL+GEL++E++ELPPH+THVS  EIKR
Sbjct: 23 ANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGELDLERDELPPHLTHVSVAEIKR 82

Query: 83 VSDVDSSIGFL 94
          VS +  S+ FL
Sbjct: 83 VSALFFSLLFL 93

BLAST of Carg13926 vs. TrEMBL
Match: tr|A0A251U0R4|A0A251U0R4_HELAN (Putative U6 snRNA-associated Sm-like protein LSm1 OS=Helianthus annuus OX=4232 GN=LSM1 PE=4 SV=1)

HSP 1 Score: 114.4 bits (285), Expect = 1.4e-22
Identity = 57/72 (79.17%), Postives = 59/72 (81.94%), Query Frame = 0

Query: 23  ANAVLEGSCERVIVGDLYSDIPLGLYVIRGENVVLLGELNMEKEELPPHMTHVSAVEIKR 82
           ANAVLEGSCERVIVGDLY DIPLGLYVIRGENVVL+GEL MEKEELPPHMT VS  EIKR
Sbjct: 44  ANAVLEGSCERVIVGDLYCDIPLGLYVIRGENVVLIGELEMEKEELPPHMTRVSEAEIKR 103

Query: 83  VSDVDSSIGFLK 95
              V+     LK
Sbjct: 104 AQKVEREATDLK 115

The following BLAST results are available for this feature:
Match NameE-valueIdentityDescription
XP_022964148.12.0e-2586.11sm-like protein LSM1B [Cucurbita moschata] >XP_022964149.1 sm-like protein LSM1B... [more]
XP_023515193.14.6e-2584.72sm-like protein LSM1B isoform X1 [Cucurbita pepo subsp. pepo] >XP_023515194.1 sm... [more]
XP_022154301.11.0e-2483.33sm-like protein LSM1B [Momordica charantia][more]
XP_004141715.11.7e-2483.33PREDICTED: sm-like protein LSM1B [Cucumis sativus] >XP_008462280.1 PREDICTED: sm... [more]
KDO64964.11.2e-2277.46hypothetical protein CISIN_1g0321082mg, partial [Citrus sinensis][more]
Match NameE-valueIdentityDescription
AT3G14080.16.8e-2369.44Small nuclear ribonucleoprotein family protein[more]
AT1G19120.11.1e-2066.67Small nuclear ribonucleoprotein family protein[more]
Match NameE-valueIdentityDescription
sp|Q8LFL8|LSM1B_ARATH1.2e-2169.44Sm-like protein LSM1B OS=Arabidopsis thaliana OX=3702 GN=LSM1B PE=1 SV=1[more]
sp|Q945P8|LSM1A_ARATH1.9e-1966.67Sm-like protein LSM1A OS=Arabidopsis thaliana OX=3702 GN=LSM1A PE=1 SV=1[more]
sp|Q8VC85|LSM1_MOUSE4.1e-0955.17U6 snRNA-associated Sm-like protein LSm1 OS=Mus musculus OX=10090 GN=Lsm1 PE=1 S... [more]
sp|Q5E9Z8|LSM1_BOVIN9.1e-0958.33U6 snRNA-associated Sm-like protein LSm1 OS=Bos taurus OX=9913 GN=LSM1 PE=2 SV=1[more]
sp|O15116|LSM1_HUMAN9.1e-0958.33U6 snRNA-associated Sm-like protein LSm1 OS=Homo sapiens OX=9606 GN=LSM1 PE=1 SV... [more]
Match NameE-valueIdentityDescription
tr|A0A1S3CGJ0|A0A1S3CGJ0_CUCME1.1e-2483.33sm-like protein LSM1B OS=Cucumis melo OX=3656 GN=LOC103500677 PE=4 SV=1[more]
tr|A0A0A0KAS4|A0A0A0KAS4_CUCSA1.1e-2483.33Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_7G448830 PE=4 SV=1[more]
tr|A0A0D2QGC5|A0A0D2QGC5_GOSRA8.2e-2374.32Uncharacterized protein OS=Gossypium raimondii OX=29730 GN=B456_009G145700 PE=4 ... [more]
tr|A0A067FC20|A0A067FC20_CITSI8.2e-2377.46Uncharacterized protein (Fragment) OS=Citrus sinensis OX=2711 GN=CISIN_1g0321082... [more]
tr|A0A251U0R4|A0A251U0R4_HELAN1.4e-2279.17Putative U6 snRNA-associated Sm-like protein LSm1 OS=Helianthus annuus OX=4232 G... [more]
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
molecular_function GO:0003674 molecular_function

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

Feature NameUnique NameType
Carg13926-RACarg13926-RAmRNA


Analysis Name: InterPro Annotations of silver-seed gourd
Date Performed: 2019-03-07
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableGENE3DG3DSA:2.30.30.100coord: 17..89
e-value: 1.5E-13
score: 52.5
NoneNo IPR availablePANTHERPTHR15588:SF11SM-LIKE PROTEIN LSM1Acoord: 18..87
NoneNo IPR availablePANTHERPTHR15588LSM1coord: 18..87

The following gene(s) are paralogous to this gene:
GeneParalogueOrganismBlock
Carg13926Carg18971Silver-seed gourdcarcarB540