Cp4.1LG08g13390 (gene) Cucurbita pepo (Zucchini)

Overview
NameCp4.1LG08g13390
Typegene
OrganismCucurbita pepo (Cucurbita pepo (Zucchini))
DescriptionSigma factor binding protein 1, chloroplastic
LocationCp4.1LG08 : 9672254 .. 9672643 (+)
Genome Viewer
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

mRNA sequence

ATGGAATCGAGTTTAGTTGGGAGGGACGTGGAAGAGGGGAGGAAAGAAAGGAGAAGGAAAAGGAAACCCTGTGATCGGAAGAACCAACCTCTCAAAGTTGTGTACATATCCAACCCCATGAGGGTTCAAGCCAGTGCGGCTGAATTTAGAGGCCTGGTTCAACAACTCACCGGCCAAGATGCGCCTAAGTTTCCTCCTTCCGCCTCGGTGGAGACTCCGGAGACTAATGTTCGAAAGATACAAGACGACGACGACGACGACGATCAACAACTCTTACTTCACTGGGCTGCTGCAATAATGGAGGATTCCAGTGATGATTTTCTTGGGGGTTCGTATGAGAGCTTGGAGGGTATTTTCATGAGGGATATGGTGGACAGATTGGCGGCTTGA

Coding sequence (CDS)

ATGGAATCGAGTTTAGTTGGGAGGGACGTGGAAGAGGGGAGGAAAGAAAGGAGAAGGAAAAGGAAACCCTGTGATCGGAAGAACCAACCTCTCAAAGTTGTGTACATATCCAACCCCATGAGGGTTCAAGCCAGTGCGGCTGAATTTAGAGGCCTGGTTCAACAACTCACCGGCCAAGATGCGCCTAAGTTTCCTCCTTCCGCCTCGGTGGAGACTCCGGAGACTAATGTTCGAAAGATACAAGACGACGACGACGACGACGATCAACAACTCTTACTTCACTGGGCTGCTGCAATAATGGAGGATTCCAGTGATGATTTTCTTGGGGGTTCGTATGAGAGCTTGGAGGGTATTTTCATGAGGGATATGGTGGACAGATTGGCGGCTTGA

Protein sequence

MESSLVGRDVEEGRKERRRKRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQDAPKFPPSASVETPETNVRKIQDDDDDDDQQLLLHWAAAIMEDSSDDFLGGSYESLEGIFMRDMVDRLAA
Homology
[Close]
BLAST of Cp4.1LG08g13390 vs. Swiss-Prot
Match: SIB1_ARATH (Sigma factor binding protein 1, chloroplastic OS=Arabidopsis thaliana GN=SIB1 PE=1 SV=1)

HSP 1 Score: 55.1 bits (131), Expect = 6.7e-07
Identity = 30/53 (56.60%), Postives = 38/53 (71.70%), Query Frame = 1 

Query: 14 RKERRRKRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQDAPKFPP 67
          RK  ++K+K     N+P+KV YISNPMRVQ  A++FR LVQ+LTGQDA    P
Sbjct: 24 RKSPKQKKKTTST-NKPIKVRYISNPMRVQTCASKFRELVQELTGQDAVDLQP 75

[Close]
BLAST of Cp4.1LG08g13390 vs. Swiss-Prot
Match: SIB2_ARATH (Sigma factor binding protein 2, chloroplastic OS=Arabidopsis thaliana GN=SIB2 PE=1 SV=1)

HSP 1 Score: 55.1 bits (131), Expect = 6.7e-07
Identity = 26/54 (48.15%), Postives = 38/54 (70.37%), Query Frame = 1 

Query: 19 RKRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQDAPKFPPSASVET 73
          ++++     ++P+KV YISNPMRV+   ++FR LVQ+LTGQDA   PPS +  T
Sbjct: 25 KQKRKSTTTHKPIKVRYISNPMRVETCPSKFRELVQELTGQDAADLPPSPTTFT 78

[Close]
BLAST of Cp4.1LG08g13390 vs. TrEMBL
Match: A0A0A0LFH5_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_3G820480 PE=4 SV=1)

HSP 1 Score: 92.4 bits (228), Expect = 4.2e-16
Identity = 58/121 (47.93%), Postives = 76/121 (62.81%), Query Frame = 1 

Query: 19  RKRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQDA-----PKFPPSASVE-- 78
           RKRK C+   QPLKVVYISNPMRV  SA+EFR LVQ+LTG+DA      KF P++S E  
Sbjct: 22  RKRKSCEENKQPLKVVYISNPMRVHTSASEFRALVQELTGRDAEFPDPTKFYPASSCEIM 81

Query: 79  -TPETNVRKIQDDDDDDDQQLLLHWAAAIMEDSS--DDFLGGSYESLEGIFMRDMVDRLA 130
              +   + +  + ++D+Q+LL+        DSS  DDFL  SYESLE I  RD+++   
Sbjct: 82  NDDDVEKKVVAAEGEEDEQELLI--------DSSCDDDFLRSSYESLEDILRRDVMENFG 134

[Close]
BLAST of Cp4.1LG08g13390 vs. TrEMBL
Match: A0A0A0L3J8_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_4G431960 PE=4 SV=1)

HSP 1 Score: 65.5 bits (158), Expect = 5.5e-08
Identity = 44/117 (37.61%), Postives = 66/117 (56.41%), Query Frame = 1 

Query: 14  RKERRRKRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQDA-----PKFPPSA 73
           RK  ++ ++P +R  +P+KVVYISNPM+VQ SA+ F  LVQ+LTGQDA      KFPPSA
Sbjct: 20  RKPTKKTKQPKNRLKKPIKVVYISNPMKVQTSASGFMALVQELTGQDADFPDPSKFPPSA 79

Query: 74  ----SVETPETNVRKIQDDDDDDDQQLLLHWAAAIMED---SSDDFLGGSYESLEGI 119
               +  T +         +DD    L+++   + + D   + DD LG  Y+  + +
Sbjct: 80  VCDGAASTDQLYNTISSGGEDDGATNLIVNSNNSSLVDEVPAEDDILGSFYDDFDDL 136

[Close]
BLAST of Cp4.1LG08g13390 vs. TrEMBL
Match: A0A059DHW1_EUCGR (Uncharacterized protein OS=Eucalyptus grandis GN=EUGRSUZ_A02242 PE=4 SV=1)

HSP 1 Score: 60.8 bits (146), Expect = 1.4e-06
Identity = 47/131 (35.88%), Postives = 67/131 (51.15%), Query Frame = 1 

Query: 19  RKRKPCDR---KNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQDA-----PKF----PP 78
           +KRKP  R   K++P+KVVYISNPMRV+ SA++FR LVQ+LTG+DA      KF    P 
Sbjct: 9   QKRKPTKRSKPKSKPIKVVYISNPMRVKTSASQFRALVQKLTGRDAEFPDPAKFHGSDPD 68

Query: 79  SASVETPETNVRKIQDDDDDDDQQLLLHWAAAIME---------DSSDDFLG-GSYESLE 128
                 P   V    DD  +  ++L L    ++ +               LG G+YE  +
Sbjct: 69  GVGAAAPRAVVDAADDDVVEPGRRLSLPKVGSVQDLHHHHQNHPSGDHGRLGAGNYEPFD 128

[Close]
BLAST of Cp4.1LG08g13390 vs. TrEMBL
Match: A0A061EVV1_THECC (VQ motif-containing protein, putative OS=Theobroma cacao GN=TCM_024241 PE=4 SV=1)

HSP 1 Score: 58.9 bits (141), Expect = 5.2e-06
Identity = 39/87 (44.83%), Postives = 53/87 (60.92%), Query Frame = 1 

Query: 1  MESSLVGRDVEEGRKERRRKRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQD 60
          M++SL      +  K+ + K+K     N+P+KVVYISNPM+V+ SA++FR LVQ+LTGQD
Sbjct: 1  MDNSLGSLQHSKAAKKAKSKKKK--NNNKPIKVVYISNPMKVKTSASKFRALVQELTGQD 60

Query: 61 APKFPPSASVETPETNVRKIQDDDDDD 88
          A         E P+    K  D DDDD
Sbjct: 61 A---------ELPDPT--KFTDTDDDD 74

[Close]
BLAST of Cp4.1LG08g13390 vs. TrEMBL
Match: A0A078JT89_BRANA (BnaUnng02910D protein OS=Brassica napus GN=BnaUnng02910D PE=4 SV=1)

HSP 1 Score: 58.9 bits (141), Expect = 5.2e-06
Identity = 41/103 (39.81%), Postives = 53/103 (51.46%), Query Frame = 1 

Query: 27  KNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQDA------PKFPPSA------SVETPE 86
           +N+P+KV YISNPMRV+  A++FR LVQ+LTGQDA      P+F PSA      S   PE
Sbjct: 33  RNKPIKVRYISNPMRVKTCASKFRELVQELTGQDAVDLELEPEFSPSAVSDHSPSPPPPE 92

Query: 87  TNVRKIQDDDDDDDQQLLLHWAAAIMEDSSDDFLGGSYESLEG 118
           T    I                    ++  DD + G YE L+G
Sbjct: 93  TFAPHIPH------------------QEPFDDLVAGYYEPLDG 117

[Close]
BLAST of Cp4.1LG08g13390 vs. TAIR10
Match: AT3G56710.1 (AT3G56710.1 sigma factor binding protein 1)

HSP 1 Score: 55.1 bits (131), Expect = 3.8e-08
Identity = 30/53 (56.60%), Postives = 38/53 (71.70%), Query Frame = 1 

Query: 14 RKERRRKRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQDAPKFPP 67
          RK  ++K+K     N+P+KV YISNPMRVQ  A++FR LVQ+LTGQDA    P
Sbjct: 24 RKSPKQKKKTTST-NKPIKVRYISNPMRVQTCASKFRELVQELTGQDAVDLQP 75

[Close]
BLAST of Cp4.1LG08g13390 vs. TAIR10
Match: AT2G41180.1 (AT2G41180.1 VQ motif-containing protein)

HSP 1 Score: 55.1 bits (131), Expect = 3.8e-08
Identity = 26/54 (48.15%), Postives = 38/54 (70.37%), Query Frame = 1 

Query: 19 RKRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQDAPKFPPSASVET 73
          ++++     ++P+KV YISNPMRV+   ++FR LVQ+LTGQDA   PPS +  T
Sbjct: 25 KQKRKSTTTHKPIKVRYISNPMRVETCPSKFRELVQELTGQDAADLPPSPTTFT 78

[Close]
BLAST of Cp4.1LG08g13390 vs. NCBI nr
Match: gi|778685199|ref|XP_011652185.1| (PREDICTED: uncharacterized protein LOC105434994 [Cucumis sativus])

HSP 1 Score: 92.4 bits (228), Expect = 6.1e-16
Identity = 58/121 (47.93%), Postives = 76/121 (62.81%), Query Frame = 1 

Query: 19  RKRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQDA-----PKFPPSASVE-- 78
           RKRK C+   QPLKVVYISNPMRV  SA+EFR LVQ+LTG+DA      KF P++S E  
Sbjct: 22  RKRKSCEENKQPLKVVYISNPMRVHTSASEFRALVQELTGRDAEFPDPTKFYPASSCEIM 81

Query: 79  -TPETNVRKIQDDDDDDDQQLLLHWAAAIMEDSS--DDFLGGSYESLEGIFMRDMVDRLA 130
              +   + +  + ++D+Q+LL+        DSS  DDFL  SYESLE I  RD+++   
Sbjct: 82  NDDDVEKKVVAAEGEEDEQELLI--------DSSCDDDFLRSSYESLEDILRRDVMENFG 134

[Close]
BLAST of Cp4.1LG08g13390 vs. NCBI nr
Match: gi|659085802|ref|XP_008443611.1| (PREDICTED: sigma factor binding protein 2, chloroplastic [Cucumis melo])

HSP 1 Score: 91.7 bits (226), Expect = 1.0e-15
Identity = 56/124 (45.16%), Postives = 75/124 (60.48%), Query Frame = 1 

Query: 14  RKERRRKRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQDA------PKFPPS 73
           +K+  RKRK C+   QPLKVVYISNPMRV  SA+EFR LVQ+LTG+DA        +P S
Sbjct: 17  KKKTTRKRKSCEENKQPLKVVYISNPMRVHTSASEFRALVQELTGRDAEFPDPSKFYPAS 76

Query: 74  ASVETPETNVRKIQDDDDDDDQQLLLHWAAAIMEDSS--DDFLGGSYESLEGIFMRDMVD 130
             +   +   + + D  +DD+Q+LL+        DSS  DDF   S+ESLE I  RD+++
Sbjct: 77  CEIVMNDLEKKVVADQGEDDEQELLI--------DSSCDDDFWRSSFESLEDILRRDVME 132

[Close]
BLAST of Cp4.1LG08g13390 vs. NCBI nr
Match: gi|778694743|ref|XP_011653858.1| (PREDICTED: sigma factor binding protein 2, chloroplastic-like [Cucumis sativus])

HSP 1 Score: 65.5 bits (158), Expect = 8.0e-08
Identity = 44/117 (37.61%), Postives = 66/117 (56.41%), Query Frame = 1 

Query: 14  RKERRRKRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQDA-----PKFPPSA 73
           RK  ++ ++P +R  +P+KVVYISNPM+VQ SA+ F  LVQ+LTGQDA      KFPPSA
Sbjct: 20  RKPTKKTKQPKNRLKKPIKVVYISNPMKVQTSASGFMALVQELTGQDADFPDPSKFPPSA 79

Query: 74  ----SVETPETNVRKIQDDDDDDDQQLLLHWAAAIMED---SSDDFLGGSYESLEGI 119
               +  T +         +DD    L+++   + + D   + DD LG  Y+  + +
Sbjct: 80  VCDGAASTDQLYNTISSGGEDDGATNLIVNSNNSSLVDEVPAEDDILGSFYDDFDDL 136

[Close]
BLAST of Cp4.1LG08g13390 vs. NCBI nr
Match: gi|659111355|ref|XP_008455708.1| (PREDICTED: sigma factor binding protein 2, chloroplastic-like [Cucumis melo])

HSP 1 Score: 64.3 bits (155), Expect = 1.8e-07
Identity = 46/118 (38.98%), Postives = 66/118 (55.93%), Query Frame = 1 

Query: 14  RKERRRKRKPCDRK-NQPLKVVYISNPMRVQASAAEFRGLVQQLTGQDA-----PKFPPS 73
           R++  +K K  ++K  +P+KVVYISNPM+VQ SA+EF  LVQ+LTGQDA      KFPPS
Sbjct: 38  RRKPAKKTKQSNKKLKKPIKVVYISNPMKVQTSASEFMALVQELTGQDADFPDPSKFPPS 97

Query: 74  A----SVETPETNVRKIQDDDDDDDQQLLLHWAAAIMED---SSDDFLGGSYESLEGI 119
           A    +  T +         DDD    L+++     + D   + DD LG  Y+  + +
Sbjct: 98  AVCDDAASTDQLYNTVSGGGDDDGASNLIVNSNNPSLVDDVPAEDDILGSFYDDFDDL 155

[Close]
BLAST of Cp4.1LG08g13390 vs. NCBI nr
Match: gi|1009170765|ref|XP_015866372.1| (PREDICTED: uncharacterized protein LOC107403959 [Ziziphus jujuba])

HSP 1 Score: 63.5 bits (153), Expect = 3.0e-07
Identity = 35/85 (41.18%), Postives = 57/85 (67.06%), Query Frame = 1 

Query: 13 GRKERRRKRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQDAPKFPPSASVET 72
          G ++R+  +    +K++P++VVYISNPM+V+ SAAEFR LVQ+LTGQDA + P  + ++ 
Sbjct: 11 GMQQRKSSKNGKSKKSKPVRVVYISNPMKVKTSAAEFRALVQELTGQDA-EIPDPSKLKL 70

Query: 73 PET-----NVRKIQDDDDDDDQQLL 93
          P T          +D++++ D Q+L
Sbjct: 71 PPTAAAAEETEAAEDNENEHDHQVL 94

The following BLAST results are available for this feature:
BLAST of Cp4.1LG08g13390 vs. Swiss-Prot
Match NameE-valueIdentityDescription
SIB1_ARATH6.7e-0756.60Sigma factor binding protein 1, chloroplastic OS=Arabidopsis thaliana GN=SIB1 PE... [more]
SIB2_ARATH6.7e-0748.15Sigma factor binding protein 2, chloroplastic OS=Arabidopsis thaliana GN=SIB2 PE... [more]
BLAST of Cp4.1LG08g13390 vs. TrEMBL
Match NameE-valueIdentityDescription
A0A0A0LFH5_CUCSA4.2e-1647.93Uncharacterized protein OS=Cucumis sativus GN=Csa_3G820480 PE=4 SV=1[more]
A0A0A0L3J8_CUCSA5.5e-0837.61Uncharacterized protein OS=Cucumis sativus GN=Csa_4G431960 PE=4 SV=1[more]
A0A059DHW1_EUCGR1.4e-0635.88Uncharacterized protein OS=Eucalyptus grandis GN=EUGRSUZ_A02242 PE=4 SV=1[more]
A0A061EVV1_THECC5.2e-0644.83VQ motif-containing protein, putative OS=Theobroma cacao GN=TCM_024241 PE=4 SV=1[more]
A0A078JT89_BRANA5.2e-0639.81BnaUnng02910D protein OS=Brassica napus GN=BnaUnng02910D PE=4 SV=1[more]
BLAST of Cp4.1LG08g13390 vs. TAIR10
Match NameE-valueIdentityDescription
AT3G56710.13.8e-0856.60 sigma factor binding protein 1[more]
AT2G41180.13.8e-0848.15 VQ motif-containing protein[more]
BLAST of Cp4.1LG08g13390 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|778685199|ref|XP_011652185.1|6.1e-1647.93PREDICTED: uncharacterized protein LOC105434994 [Cucumis sativus][more]
gi|659085802|ref|XP_008443611.1|1.0e-1545.16PREDICTED: sigma factor binding protein 2, chloroplastic [Cucumis melo][more]
gi|778694743|ref|XP_011653858.1|8.0e-0837.61PREDICTED: sigma factor binding protein 2, chloroplastic-like [Cucumis sativus][more]
gi|659111355|ref|XP_008455708.1|1.8e-0738.98PREDICTED: sigma factor binding protein 2, chloroplastic-like [Cucumis melo][more]
gi|1009170765|ref|XP_015866372.1|3.0e-0741.18PREDICTED: uncharacterized protein LOC107403959 [Ziziphus jujuba][more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: INTERPRO
TermDefinition
IPR008889VQ
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0008150 biological_process
biological_process GO:0051091 positive regulation of sequence-specific DNA binding transcription factor activity
cellular_component GO:0005575 cellular_component
molecular_function GO:0003674 molecular_function
Relationships

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

Feature NameUnique NameType
Cp4.1LG08g13390.1Cp4.1LG08g13390.1mRNA


InterPro
Analysis Name: InterPro Annotations of Cucurbita pepo
Date Performed: 2017-12-02
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR008889VQPFAMPF05678VQcoord: 36..62
score: 1.4
NoneNo IPR availablePANTHERPTHR33624FAMILY NOT NAMEDcoord: 13..61
score: 2.7

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
Cp4.1LG08g13390Cucsa.337760Cucumber (Gy14) v1cgycpeB0901
Cp4.1LG08g13390CmaCh06G000260Cucurbita maxima (Rimu)cmacpeB846
Cp4.1LG08g13390Cla002876Watermelon (97103) v1cpewmB830
Cp4.1LG08g13390Csa3G820480Cucumber (Chinese Long) v2cpecuB855
Cp4.1LG08g13390MELO3C009755Melon (DHL92) v3.5.1cpemeB797
Cp4.1LG08g13390ClCG10G016220Watermelon (Charleston Gray)cpewcgB767
Cp4.1LG08g13390CSPI03G37800Wild cucumber (PI 183967)cpecpiB857
Cp4.1LG08g13390MELO3C009755.2Melon (DHL92) v3.6.1cpemedB938
Cp4.1LG08g13390CsaV3_3G040160Cucumber (Chinese Long) v3cpecucB1052
Cp4.1LG08g13390Bhi11G002315Wax gourdcpewgoB1087
Cp4.1LG08g13390Carg01295Silver-seed gourdcarcpeB0234
The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:
GeneOrganismBlock
Cp4.1LG08g13390Cucurbita pepo (Zucchini)cpecpeB485
Cp4.1LG08g13390Cucurbita pepo (Zucchini)cpecpeB483
Cp4.1LG08g13390Cucumber (Gy14) v1cgycpeB0900
Cp4.1LG08g13390Cucurbita maxima (Rimu)cmacpeB297
Cp4.1LG08g13390Cucurbita moschata (Rifu)cmocpeB257
Cp4.1LG08g13390Cucurbita moschata (Rifu)cmocpeB260
Cp4.1LG08g13390Cucurbita moschata (Rifu)cmocpeB794
Cp4.1LG08g13390Wild cucumber (PI 183967)cpecpiB866
Cp4.1LG08g13390Cucumber (Chinese Long) v2cpecuB864
Cp4.1LG08g13390Bottle gourd (USVL1VR-Ls)cpelsiB711
Cp4.1LG08g13390Bottle gourd (USVL1VR-Ls)cpelsiB708
Cp4.1LG08g13390Watermelon (Charleston Gray)cpewcgB776
Cp4.1LG08g13390Watermelon (97103) v1cpewmB838
Cp4.1LG08g13390Melon (DHL92) v3.5.1cpemeB802
Cp4.1LG08g13390Cucumber (Gy14) v2cgybcpeB450
Cp4.1LG08g13390Cucumber (Gy14) v2cgybcpeB457
Cp4.1LG08g13390Melon (DHL92) v3.6.1cpemedB943
Cp4.1LG08g13390Silver-seed gourdcarcpeB0355
Cp4.1LG08g13390Cucumber (Chinese Long) v3cpecucB1060
Cp4.1LG08g13390Wax gourdcpewgoB1080