CmaCh04G013220 (gene) Cucurbita maxima (Rimu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmaCh04G013220
Type	gene
Organism	Cucurbita maxima (Cucurbita maxima (Rimu))
Description	Sigma factor binding protein 1
Location	Cma_Chr04 : 6727794 .. 6728174 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDS

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

ATGGATGTAATCGGCAAAAAACAGCCGAAGAGAACCAAGAAATCGGCCGCCAATTTCAAAGTCGTGTACATTTCGAGTCCGATGAAGGTGAAAACCAGCGCCTCGAAGTTTAGATCTCTCGTCCAGAAACTCACCGGCCAGGACTCTGACGCCGAGAGTTTCCTGGAACTCATCGCAGGTGATCGGAACTTTCAATCGTCCGCGTTCCTCGATTACCAAATCCTCGGCGATGACAATCTAATTAATCGCGACCATCGTCTTGTGGCGGGAAAGATCGAAACGGCGGCATATCAATCGTTGGTTGCTCCGCCGGCAGATGATTTGGTTCTGCAGAACTTCGATGCGAGTTTTGAAGAAATGCTCCGTGGATTTTTTGCATGA

mRNA sequence

ATGGATGTAATCGGCAAAAAACAGCCGAAGAGAACCAAGAAATCGGCCGCCAATTTCAAAGTCGTGTACATTTCGAGTCCGATGAAGGTGAAAACCAGCGCCTCGAAGTTTAGATCTCTCGTCCAGAAACTCACCGGCCAGGACTCTGACGCCGAGAGTTTCCTGGAACTCATCGCAGGTGATCGGAACTTTCAATCGTCCGCGTTCCTCGATTACCAAATCCTCGGCGATGACAATCTAATTAATCGCGACCATCGTCTTGTGGCGGGAAAGATCGAAACGGCGGCATATCAATCGTTGGTTGCTCCGCCGGCAGATGATTTGGTTCTGCAGAACTTCGATGCGAGTTTTGAAGAAATGCTCCGTGGATTTTTTGCATGA

Coding sequence (CDS)

ATGGATGTAATCGGCAAAAAACAGCCGAAGAGAACCAAGAAATCGGCCGCCAATTTCAAAGTCGTGTACATTTCGAGTCCGATGAAGGTGAAAACCAGCGCCTCGAAGTTTAGATCTCTCGTCCAGAAACTCACCGGCCAGGACTCTGACGCCGAGAGTTTCCTGGAACTCATCGCAGGTGATCGGAACTTTCAATCGTCCGCGTTCCTCGATTACCAAATCCTCGGCGATGACAATCTAATTAATCGCGACCATCGTCTTGTGGCGGGAAAGATCGAAACGGCGGCATATCAATCGTTGGTTGCTCCGCCGGCAGATGATTTGGTTCTGCAGAACTTCGATGCGAGTTTTGAAGAAATGCTCCGTGGATTTTTTGCATGA

Protein sequence

MDVIGKKQPKRTKKSAANFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFLELIAGDRNFQSSAFLDYQILGDDNLINRDHRLVAGKIETAAYQSLVAPPADDLVLQNFDASFEEMLRGFFA

Homology

[Close]

BLAST of CmaCh04G013220 vs. TrEMBL
Match: D1MWZ4_CITLA (Sigma factor binding protein 1 OS=Citrullus lanatus subsp. vulgaris GN=CitSIB PE=2 SV=1)

HSP 1 Score: 149.8 bits (377), Expect = 2.2e-33
Identity = 92/135 (68.15%), Postives = 104/135 (77.04%), Query Frame = 1


Query: 1   MDVIGKKQPKRTKKS-AANFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFLEL-- 60
           M+V GKKQ KR++KS AA+FKVVYISSPMKVKTSASKFRSLVQ+LTGQDSDAE F+EL  
Sbjct: 1   MNVTGKKQAKRSRKSAAADFKVVYISSPMKVKTSASKFRSLVQRLTGQDSDAERFMELTA 60

Query: 61  -IAGDRNFQSSA---FLDYQILGDDNLINRDHRLVAGKIETAAYQSLVA--PPADDL-VL 120
             A DRN QSSA   F DYQ+LGDD+L+      VAGK+ETAAY+S VA  PP DDL VL
Sbjct: 61  SAASDRNLQSSASATFFDYQLLGDDDLV------VAGKVETAAYESSVAALPPPDDLAVL 120

Query: 121 QNFDASFEEMLRGFF 126
            N DASF  M  GF+
Sbjct: 121 HNLDASFGGMFHGFW 129

[Close]

BLAST of CmaCh04G013220 vs. TrEMBL
Match: A0A0A0KTR9_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_5G623915 PE=4 SV=1)

HSP 1 Score: 117.9 bits (294), Expect = 9.2e-24
Identity = 72/131 (54.96%), Postives = 94/131 (71.76%), Query Frame = 1


Query: 1   MDVIGKKQPKRTKKSA-ANFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFLELIA 60
           M V GKKQ KR+KKSA A FKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAE F+E+ +
Sbjct: 1   MIVTGKKQAKRSKKSAGAGFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAERFMEMAS 60

Query: 61  G--DRN---FQSSAFLDYQILGDDNLINRDHRLVAGKIETAAYQSLVAPPADDLVLQNFD 120
           G  D N   + S++F+D+Q++G++++      +V GK+E       V+P  +   LQN D
Sbjct: 61  GGSDGNGEWWASASFVDHQVMGEEDV------MVGGKVEAGV--GGVSPLDELAFLQNLD 120

Query: 121 ASFEEMLRGFF 126
            ++ EML GF+
Sbjct: 121 GNYAEMLNGFW 123

[Close]

BLAST of CmaCh04G013220 vs. TrEMBL
Match: A0A067L8W8_JATCU (Uncharacterized protein OS=Jatropha curcas GN=JCGZ_24548 PE=4 SV=1)

HSP 1 Score: 76.6 bits (187), Expect = 2.3e-11
Identity = 44/72 (61.11%), Postives = 56/72 (77.78%), Query Frame = 1


Query: 1  MDVIG-----KKQPKRTKKSAANFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFL 60
          MDV+G     K+Q KR+KK+    KVVYISSPMKV+TSASKFR+LVQ+LTG+DSDA  F+
Sbjct: 1  MDVLGVNMKNKRQAKRSKKA---IKVVYISSPMKVQTSASKFRALVQELTGKDSDAARFM 60

Query: 61 ELIAGDRNFQSS 68
          ++  GD+N  SS
Sbjct: 61 DVNGGDQNLNSS 69

[Close]

BLAST of CmaCh04G013220 vs. TrEMBL
Match: M5XE50_PRUPE (Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa013276mg PE=4 SV=1)

HSP 1 Score: 72.0 bits (175), Expect = 5.8e-10
Identity = 47/114 (41.23%), Postives = 65/114 (57.02%), Query Frame = 1


Query: 6   KKQPKRTKK-SAANFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFLELIAGDRNF 65
           K  PK++K+  +   KVVYISSPMKVKTSASKFR+LVQ+LTG+DSDAE F+E        
Sbjct: 10  KSPPKQSKRRKSKGVKVVYISSPMKVKTSASKFRALVQELTGRDSDAERFMETKGAHYQN 69

Query: 66  QSSAFLDYQILGDDNLINRDHRLVAGKIETAAYQSLVAPPADDLVLQNFDASFE 119
                 + Q+ G D+  + DH L+     + ++     P   D + + F   FE
Sbjct: 70  VHELTHEQQLKGVDHDHDHDHGLLPQLPFSNSFFEF--PNCSDALFEPFSGHFE 121

[Close]

BLAST of CmaCh04G013220 vs. TrEMBL
Match: A0A022RSA8_ERYGU (Uncharacterized protein OS=Erythranthe guttata GN=MIMGU_mgv1a015864mg PE=4 SV=1)

HSP 1 Score: 70.5 bits (171), Expect = 1.7e-09
Identity = 48/129 (37.21%), Postives = 72/129 (55.81%), Query Frame = 1


Query: 1   MDVIGKKQPKRTKKSAANFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFLELIAG 60
           MD I  ++    +K+  + KVVYISSPMKVKTSASKFRSLVQ+LTG++SD   ++E    
Sbjct: 1   MDQIKSQKKSVKRKNNNSLKVVYISSPMKVKTSASKFRSLVQQLTGKNSDISQYME---E 60

Query: 61  DRNFQSSAFLDYQILGDDNLINRDHRL---VAGKIETAAYQSLVAPPADDLVLQNFDASF 120
             N  +  F D+  + D +L N + R+   ++   ET      +  P +D+    F +  
Sbjct: 61  SNNINNEVFRDFCEI-DRSLANDNDRMFSSISPSDETTTSSESLLGPFEDV----FTSQM 120

Query: 121 EEMLRGFFA 127
           +E   G F+
Sbjct: 121 KEQFEGIFS 121

[Close]

BLAST of CmaCh04G013220 vs. TAIR10
Match: AT3G56710.1 (AT3G56710.1 sigma factor binding protein 1)

HSP 1 Score: 50.8 bits (120), Expect = 7.0e-07
Identity = 27/49 (55.10%), Postives = 37/49 (75.51%), Query Frame = 1


Query: 4  IGKKQPKRTKKSAAN---FKVVYISSPMKVKTSASKFRSLVQKLTGQDS 50
          + +K PK+ KK+ +     KV YIS+PM+V+T ASKFR LVQ+LTGQD+
Sbjct: 22 VSRKSPKQKKKTTSTNKPIKVRYISNPMRVQTCASKFRELVQELTGQDA 70

[Close]

BLAST of CmaCh04G013220 vs. NCBI nr
Match: gi|270309002|dbj|BAI52954.1| (sigma factor binding protein 1 [Citrullus lanatus subsp. vulgaris])

HSP 1 Score: 149.8 bits (377), Expect = 3.1e-33
Identity = 92/135 (68.15%), Postives = 104/135 (77.04%), Query Frame = 1


Query: 1   MDVIGKKQPKRTKKS-AANFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFLEL-- 60
           M+V GKKQ KR++KS AA+FKVVYISSPMKVKTSASKFRSLVQ+LTGQDSDAE F+EL  
Sbjct: 1   MNVTGKKQAKRSRKSAAADFKVVYISSPMKVKTSASKFRSLVQRLTGQDSDAERFMELTA 60

Query: 61  -IAGDRNFQSSA---FLDYQILGDDNLINRDHRLVAGKIETAAYQSLVA--PPADDL-VL 120
             A DRN QSSA   F DYQ+LGDD+L+      VAGK+ETAAY+S VA  PP DDL VL
Sbjct: 61  SAASDRNLQSSASATFFDYQLLGDDDLV------VAGKVETAAYESSVAALPPPDDLAVL 120

Query: 121 QNFDASFEEMLRGFF 126
            N DASF  M  GF+
Sbjct: 121 HNLDASFGGMFHGFW 129

[Close]

BLAST of CmaCh04G013220 vs. NCBI nr
Match: gi|659092245|ref|XP_008446972.1| (PREDICTED: sigma factor binding protein 1, chloroplastic-like [Cucumis melo])

HSP 1 Score: 124.8 bits (312), Expect = 1.1e-25
Identity = 77/132 (58.33%), Postives = 99/132 (75.00%), Query Frame = 1


Query: 1   MDVIGKKQPKRTKKS-AANFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFLELIA 60
           M+V GKKQ KR+KKS AA+FKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAE F+E+ +
Sbjct: 1   MNVTGKKQAKRSKKSTAADFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAERFMEMAS 60

Query: 61  G-----DRNFQSSAFLDYQILGDDNLINRDHRLVAGKIETAAYQSLVAPPADDLV-LQNF 120
           G      +++ S++FLD Q++G+++++      V GK E AA+  +   PADDLV LQN 
Sbjct: 61  GASDGNGQSWASASFLDQQLMGEEDVV------VGGK-EEAAFGGV--NPADDLVFLQNL 120

Query: 121 DASFEEMLRGFF 126
           D +F EM  GF+
Sbjct: 121 DGNFAEMFNGFW 123

[Close]

BLAST of CmaCh04G013220 vs. NCBI nr
Match: gi|449449264|ref|XP_004142385.1| (PREDICTED: uncharacterized protein LOC101217123 [Cucumis sativus])

HSP 1 Score: 117.9 bits (294), Expect = 1.3e-23
Identity = 72/131 (54.96%), Postives = 94/131 (71.76%), Query Frame = 1


Query: 1   MDVIGKKQPKRTKKSA-ANFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFLELIA 60
           M V GKKQ KR+KKSA A FKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAE F+E+ +
Sbjct: 1   MIVTGKKQAKRSKKSAGAGFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAERFMEMAS 60

Query: 61  G--DRN---FQSSAFLDYQILGDDNLINRDHRLVAGKIETAAYQSLVAPPADDLVLQNFD 120
           G  D N   + S++F+D+Q++G++++      +V GK+E       V+P  +   LQN D
Sbjct: 61  GGSDGNGEWWASASFVDHQVMGEEDV------MVGGKVEAGV--GGVSPLDELAFLQNLD 120

Query: 121 ASFEEMLRGFF 126
            ++ EML GF+
Sbjct: 121 GNYAEMLNGFW 123

[Close]

BLAST of CmaCh04G013220 vs. NCBI nr
Match: gi|802574171|ref|XP_012068696.1| (PREDICTED: uncharacterized protein LOC105631246 [Jatropha curcas])

HSP 1 Score: 76.6 bits (187), Expect = 3.4e-11
Identity = 44/72 (61.11%), Postives = 56/72 (77.78%), Query Frame = 1


Query: 1  MDVIG-----KKQPKRTKKSAANFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFL 60
          MDV+G     K+Q KR+KK+    KVVYISSPMKV+TSASKFR+LVQ+LTG+DSDA  F+
Sbjct: 1  MDVLGVNMKNKRQAKRSKKA---IKVVYISSPMKVQTSASKFRALVQELTGKDSDAARFM 60

Query: 61 ELIAGDRNFQSS 68
          ++  GD+N  SS
Sbjct: 61 DVNGGDQNLNSS 69

[Close]

BLAST of CmaCh04G013220 vs. NCBI nr
Match: gi|470145903|ref|XP_004308571.1| (PREDICTED: sigma factor binding protein 1, chloroplastic-like [Fragaria vesca subsp. vesca])

HSP 1 Score: 76.6 bits (187), Expect = 3.4e-11
Identity = 51/129 (39.53%), Postives = 74/129 (57.36%), Query Frame = 1


Query: 1   MDVIG--KKQPKRTKKSAAN--FKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFLE 60
           MDV+G   + PK++K+S ++   KVVYISSPMKV+TSASKFR+LVQ+LTG+DSDAE F+E
Sbjct: 1   MDVLGVNNRSPKQSKRSRSSKGVKVVYISSPMKVQTSASKFRALVQELTGRDSDAERFME 60

Query: 61  LIAGDRNFQSSAFLDYQILGDDNLINRDHRLVAGKIETAAYQSLVAPPADDLVLQNFDAS 120
              GD + +     ++         +RDH +        +      P   D + + F   
Sbjct: 61  TNGGDGHHRHHKVPEFSHEKQLKEADRDHLVFPHHQIPFSNSIYELPNFSDFLFEPFTGH 120

Query: 121 FE-EMLRGF 125
           +E + LR F
Sbjct: 121 YELDALRSF 129

The following BLAST results are available for this feature:

BLAST of CmaCh04G013220 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CmaCh04G013220 vs. TrEMBL


Match Name	E-value	Identity	Description
D1MWZ4_CITLA	2.2e-33	68.15	Sigma factor binding protein 1 OS=Citrullus lanatus subsp. vulgaris GN=CitSIB PE...	[more]
A0A0A0KTR9_CUCSA	9.2e-24	54.96	Uncharacterized protein OS=Cucumis sativus GN=Csa_5G623915 PE=4 SV=1	[more]
A0A067L8W8_JATCU	2.3e-11	61.11	Uncharacterized protein OS=Jatropha curcas GN=JCGZ_24548 PE=4 SV=1	[more]
M5XE50_PRUPE	5.8e-10	41.23	Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa013276mg PE=4 SV=1	[more]
A0A022RSA8_ERYGU	1.7e-09	37.21	Uncharacterized protein OS=Erythranthe guttata GN=MIMGU_mgv1a015864mg PE=4 SV=1	[more]

BLAST of CmaCh04G013220 vs. TAIR10


Match Name	E-value	Identity	Description
AT3G56710.1	7.0e-07	55.10	sigma factor binding protein 1	[more]

BLAST of CmaCh04G013220 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|270309002\|dbj\|BAI52954.1\|	3.1e-33	68.15	sigma factor binding protein 1 [Citrullus lanatus subsp. vulgaris]	[more]
gi\|659092245\|ref\|XP_008446972.1\|	1.1e-25	58.33	PREDICTED: sigma factor binding protein 1, chloroplastic-like [Cucumis melo]	[more]
gi\|449449264\|ref\|XP_004142385.1\|	1.3e-23	54.96	PREDICTED: uncharacterized protein LOC101217123 [Cucumis sativus]	[more]
gi\|802574171\|ref\|XP_012068696.1\|	3.4e-11	61.11	PREDICTED: uncharacterized protein LOC105631246 [Jatropha curcas]	[more]
gi\|470145903\|ref\|XP_004308571.1\|	3.4e-11	39.53	PREDICTED: sigma factor binding protein 1, chloroplastic-like [Fragaria vesca su...	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR008889	VQ

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 Name	Unique Name	Type
CmaCh04G013220.1	CmaCh04G013220.1	mRNA

InterPro

Analysis Name: InterPro Annotations of Cucurbita maxima
Date Performed: 2017-05-20


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR008889	VQ	PFAM	PF05678	VQ	coord: 24..50 score: 8.2
None	No IPR available	PANTHER	PTHR33624	FAMILY NOT NAMED	coord: 10..55 score: 2.1
None	No IPR available	PANTHER	PTHR33624:SF5	SUBFAMILY NOT NAMED	coord: 10..55 score: 2.1

Synteny

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


Gene	Orthologue	Organism	Block
CmaCh04G013220	Cucsa.307850	Cucumber (Gy14) v1	cgycmaB0850
CmaCh04G013220	Cla009928	Watermelon (97103) v1	cmawmB705
CmaCh04G013220	MELO3C012484	Melon (DHL92) v3.5.1	cmameB640
CmaCh04G013220	ClCG05G026910	Watermelon (Charleston Gray)	cmawcgB661
CmaCh04G013220	CmoCh04G013940	Cucurbita moschata (Rifu)	cmacmoB728
CmaCh04G013220	Lsi04G000180	Bottle gourd (USVL1VR-Ls)	cmalsiB669
CmaCh04G013220	MELO3C012484.2	Melon (DHL92) v3.6.1	cmamedB726
CmaCh04G013220	CsaV3_5G036860	Cucumber (Chinese Long) v3	cmacucB0885
CmaCh04G013220	Cla97C05G109160	Watermelon (97103) v2	cmawmbB765
CmaCh04G013220	Bhi07G001017	Wax gourd	cmawgoB0892
CmaCh04G013220	CsGy5G027140	Cucumber (Gy14) v2	cgybcmaB672
CmaCh04G013220	Carg02002	Silver-seed gourd	carcmaB1170
CmaCh04G013220	Carg14413	Silver-seed gourd	carcmaB1015

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


Gene	Paralogue	Organism	Block
CmaCh04G013220	CmaCh18G008500	Cucurbita maxima (Rimu)	cmacmaB402

The following block(s) are covering this gene:


Gene	Organism	Block
CmaCh04G013220	Cucumber (Gy14) v1	cgycmaB0127
CmaCh04G013220	Cucurbita moschata (Rifu)	cmacmoB706
CmaCh04G013220	Wild cucumber (PI 183967)	cmacpiB755
CmaCh04G013220	Cucumber (Chinese Long) v2	cmacuB726
CmaCh04G013220	Cucumber (Chinese Long) v2	cmacuB748
CmaCh04G013220	Cucurbita pepo (Zucchini)	cmacpeB700
CmaCh04G013220	Cucurbita pepo (Zucchini)	cmacpeB720