CmoCh04G013940 (gene) Cucurbita moschata (Rifu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmoCh04G013940
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu))
Description	Sigma factor binding protein 1
Location	Cmo_Chr04 : 7094487 .. 7094867 (+)

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.

ATGGATGTAATCGGCAAAAAACCGCCGAAGAGAACCAAGAAATCGGCCGCCGGTTTCAAAGTCGTGTACATTTCGAGTCCGATGAAGGTGAAAACCAGCGCCTCGAAGTTTAGATCTCTCGTCCAGAAACTCACCGGCCAGGACTCTGACGCCGAGAGTTTCATGGAACTCATCGCAGCTGATCGGAACTTTCAATCGTCCGCGTTCCTCGATTACCAAATCCTCGGCGATGACAATCTAATTGATCGCGACCATCGTCTTGTGGCGGGAAAGATCGAAACGGCGGCGTATCAGTCGTTGGTTGCTCCGCCGGAAGATGATTTTGTTCTGCAGAACTTTGATGCGAGTTTTGAAGAAATGCTCCATGGATTTTTTGCATGA

mRNA sequence

ATGGATGTAATCGGCAAAAAACCGCCGAAGAGAACCAAGAAATCGGCCGCCGGTTTCAAAGTCGTGTACATTTCGAGTCCGATGAAGGTGAAAACCAGCGCCTCGAAGTTTAGATCTCTCGTCCAGAAACTCACCGGCCAGGACTCTGACGCCGAGAGTTTCATGGAACTCATCGCAGCTGATCGGAACTTTCAATCGTCCGCGTTCCTCGATTACCAAATCCTCGGCGATGACAATCTAATTGATCGCGACCATCGTCTTGTGGCGGGAAAGATCGAAACGGCGGCGTATCAGTCGTTGGTTGCTCCGCCGGAAGATGATTTTGTTCTGCAGAACTTTGATGCGAGTTTTGAAGAAATGCTCCATGGATTTTTTGCATGA

Coding sequence (CDS)

ATGGATGTAATCGGCAAAAAACCGCCGAAGAGAACCAAGAAATCGGCCGCCGGTTTCAAAGTCGTGTACATTTCGAGTCCGATGAAGGTGAAAACCAGCGCCTCGAAGTTTAGATCTCTCGTCCAGAAACTCACCGGCCAGGACTCTGACGCCGAGAGTTTCATGGAACTCATCGCAGCTGATCGGAACTTTCAATCGTCCGCGTTCCTCGATTACCAAATCCTCGGCGATGACAATCTAATTGATCGCGACCATCGTCTTGTGGCGGGAAAGATCGAAACGGCGGCGTATCAGTCGTTGGTTGCTCCGCCGGAAGATGATTTTGTTCTGCAGAACTTTGATGCGAGTTTTGAAGAAATGCTCCATGGATTTTTTGCATGA

Homology

[Close]

BLAST of CmoCh04G013940 vs. Swiss-Prot
Match: SIB1_ARATH (Sigma factor binding protein 1, chloroplastic OS=Arabidopsis thaliana GN=SIB1 PE=1 SV=1)

HSP 1 Score: 53.9 bits (128), Expect = 1.5e-06
Identity = 47/130 (36.15%), Postives = 66/130 (50.77%), Query Frame = 1


Query: 4   IGKKPPKRTKKSAAG---FKVVYISSPMKVKTSASKFRSLVQKLTGQDS---DAESFMEL 63
           + +K PK+ KK+ +     KV YIS+PM+V+T ASKFR LVQ+LTGQD+     E     
Sbjct: 22  VSRKSPKQKKKTTSTNKPIKVRYISNPMRVQTCASKFRELVQELTGQDAVDLQPEPIYSP 81

Query: 64  IAADRNFQSSAFLDYQILGDDNLIDRD-HRLVAGKIETAAYQSLVAPPEDDFVLQNFDAS 123
            + D N    A         +NL  R  H+   G+ ++  Y+ L A  ED F+     A 
Sbjct: 82  SSDDHNLSPPA---------ENLAPRVLHQEPFGERDSDCYEPLNA--EDMFLPDQMSAG 136

Query: 124 FEEMLHGFFA 127
           F     GFF+
Sbjct: 142 FS----GFFS 136

[Close]

BLAST of CmoCh04G013940 vs. TrEMBL
Match: D1MWZ4_CITLA (Sigma factor binding protein 1 OS=Citrullus lanatus subsp. vulgaris GN=CitSIB PE=2 SV=1)

HSP 1 Score: 150.6 bits (379), Expect = 1.3e-33
Identity = 91/135 (67.41%), Postives = 103/135 (76.30%), Query Frame = 1


Query: 1   MDVIGKKPPKRTKKSAAG-FKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFMEL-- 60
           M+V GKK  KR++KSAA  FKVVYISSPMKVKTSASKFRSLVQ+LTGQDSDAE FMEL  
Sbjct: 1   MNVTGKKQAKRSRKSAAADFKVVYISSPMKVKTSASKFRSLVQRLTGQDSDAERFMELTA 60

Query: 61  -IAADRNFQSSA---FLDYQILGDDNLIDRDHRLVAGKIETAAYQSLVA---PPEDDFVL 120
             A+DRN QSSA   F DYQ+LGDD+L+      VAGK+ETAAY+S VA   PP+D  VL
Sbjct: 61  SAASDRNLQSSASATFFDYQLLGDDDLV------VAGKVETAAYESSVAALPPPDDLAVL 120

Query: 121 QNFDASFEEMLHGFF 126
            N DASF  M HGF+
Sbjct: 121 HNLDASFGGMFHGFW 129

[Close]

BLAST of CmoCh04G013940 vs. TrEMBL
Match: A0A0A0KTR9_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_5G623915 PE=4 SV=1)

HSP 1 Score: 118.2 bits (295), Expect = 7.0e-24
Identity = 72/131 (54.96%), Postives = 96/131 (73.28%), Query Frame = 1


Query: 1   MDVIGKKPPKRTKKSA-AGFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFMELIA 60
           M V GKK  KR+KKSA AGFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAE FME+ +
Sbjct: 1   MIVTGKKQAKRSKKSAGAGFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAERFMEMAS 60

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

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

[Close]

BLAST of CmoCh04G013940 vs. TrEMBL
Match: A0A067L8W8_JATCU (Uncharacterized protein OS=Jatropha curcas GN=JCGZ_24548 PE=4 SV=1)

HSP 1 Score: 80.5 bits (197), Expect = 1.6e-12
Identity = 54/128 (42.19%), Postives = 73/128 (57.03%), Query Frame = 1


Query: 1   MDVIG--KKPPKRTKKSAAGFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFMELI 60
           MDV+G   K  ++ K+S    KVVYISSPMKV+TSASKFR+LVQ+LTG+DSDA  FM++ 
Sbjct: 1   MDVLGVNMKNKRQAKRSKKAIKVVYISSPMKVQTSASKFRALVQELTGKDSDAARFMDVN 60

Query: 61  AADRNFQSSAFLDYQILGDDNLIDRDHRLVAGKIETAAYQSLVAPPEDDFVLQNFDASFE 120
             D+N  SS     +IL D   +D     V   +  +   S    P+ DFV ++ D    
Sbjct: 61  GGDQNLNSSP----EIL-DQTGVDGQGSFVP-SLMNSCNDSSSTSPDSDFVFESLDRYLP 120

Query: 121 EMLHGFFA 127
            M   F +
Sbjct: 121 PMEGSFMS 122

[Close]

BLAST of CmoCh04G013940 vs. TrEMBL
Match: M5XE50_PRUPE (Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa013276mg PE=4 SV=1)

HSP 1 Score: 79.7 bits (195), Expect = 2.8e-12
Identity = 47/84 (55.95%), Postives = 58/84 (69.05%), Query Frame = 1


Query: 6  KKPPKRTKK-SAAGFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFMELIAADRNF 65
          K PPK++K+  + G KVVYISSPMKVKTSASKFR+LVQ+LTG+DSDAE FME   A    
Sbjct: 10 KSPPKQSKRRKSKGVKVVYISSPMKVKTSASKFRALVQELTGRDSDAERFMETKGAHYQN 69

Query: 66 QSSAFLDYQILGDDNLIDRDHRLV 89
                + Q+ G D+  D DH L+
Sbjct: 70 VHELTHEQQLKGVDHDHDHDHGLL 93

[Close]

BLAST of CmoCh04G013940 vs. TrEMBL
Match: A0A022RSA8_ERYGU (Uncharacterized protein OS=Erythranthe guttata GN=MIMGU_mgv1a015864mg PE=4 SV=1)

HSP 1 Score: 73.2 bits (178), Expect = 2.6e-10
Identity = 54/131 (41.22%), Postives = 72/131 (54.96%), Query Frame = 1


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

Query: 61  DRNFQSSAFLDY----QILGDDNLIDRDHRLVAGKIE-TAAYQSLVAPPEDDFVLQNFDA 120
             N  +  F D+    + L +DN  DR    ++   E T + +SL+ P ED F  Q    
Sbjct: 61  SNNINNEVFRDFCEIDRSLANDN--DRMFSSISPSDETTTSSESLLGPFEDVFTSQ---- 120

Query: 121 SFEEMLHGFFA 127
             +E   G F+
Sbjct: 121 -MKEQFEGIFS 121

[Close]

BLAST of CmoCh04G013940 vs. TAIR10
Match: AT3G56710.1 (AT3G56710.1 sigma factor binding protein 1)

HSP 1 Score: 53.9 bits (128), Expect = 8.2e-08
Identity = 47/130 (36.15%), Postives = 66/130 (50.77%), Query Frame = 1


Query: 4   IGKKPPKRTKKSAAG---FKVVYISSPMKVKTSASKFRSLVQKLTGQDS---DAESFMEL 63
           + +K PK+ KK+ +     KV YIS+PM+V+T ASKFR LVQ+LTGQD+     E     
Sbjct: 22  VSRKSPKQKKKTTSTNKPIKVRYISNPMRVQTCASKFRELVQELTGQDAVDLQPEPIYSP 81

Query: 64  IAADRNFQSSAFLDYQILGDDNLIDRD-HRLVAGKIETAAYQSLVAPPEDDFVLQNFDAS 123
            + D N    A         +NL  R  H+   G+ ++  Y+ L A  ED F+     A 
Sbjct: 82  SSDDHNLSPPA---------ENLAPRVLHQEPFGERDSDCYEPLNA--EDMFLPDQMSAG 136

Query: 124 FEEMLHGFFA 127
           F     GFF+
Sbjct: 142 FS----GFFS 136

[Close]

BLAST of CmoCh04G013940 vs. NCBI nr
Match: gi|270309002|dbj|BAI52954.1| (sigma factor binding protein 1 [Citrullus lanatus subsp. vulgaris])

HSP 1 Score: 150.6 bits (379), Expect = 1.8e-33
Identity = 91/135 (67.41%), Postives = 103/135 (76.30%), Query Frame = 1


Query: 1   MDVIGKKPPKRTKKSAAG-FKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFMEL-- 60
           M+V GKK  KR++KSAA  FKVVYISSPMKVKTSASKFRSLVQ+LTGQDSDAE FMEL  
Sbjct: 1   MNVTGKKQAKRSRKSAAADFKVVYISSPMKVKTSASKFRSLVQRLTGQDSDAERFMELTA 60

Query: 61  -IAADRNFQSSA---FLDYQILGDDNLIDRDHRLVAGKIETAAYQSLVA---PPEDDFVL 120
             A+DRN QSSA   F DYQ+LGDD+L+      VAGK+ETAAY+S VA   PP+D  VL
Sbjct: 61  SAASDRNLQSSASATFFDYQLLGDDDLV------VAGKVETAAYESSVAALPPPDDLAVL 120

Query: 121 QNFDASFEEMLHGFF 126
            N DASF  M HGF+
Sbjct: 121 HNLDASFGGMFHGFW 129

[Close]

BLAST of CmoCh04G013940 vs. NCBI nr
Match: gi|659092245|ref|XP_008446972.1| (PREDICTED: sigma factor binding protein 1, chloroplastic-like [Cucumis melo])

HSP 1 Score: 119.4 bits (298), Expect = 4.5e-24
Identity = 77/131 (58.78%), Postives = 95/131 (72.52%), Query Frame = 1


Query: 1   MDVIGKKPPKRTKKS-AAGFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFMELI- 60
           M+V GKK  KR+KKS AA FKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAE FME+  
Sbjct: 1   MNVTGKKQAKRSKKSTAADFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAERFMEMAS 60

Query: 61  -AADRNFQ---SSAFLDYQILGDDNLIDRDHRLVAGKIETAAYQSLVAPPEDDFVLQNFD 120
            A+D N Q   S++FLD Q++G+++++      V GK E AA+   V P +D   LQN D
Sbjct: 61  GASDGNGQSWASASFLDQQLMGEEDVV------VGGK-EEAAFGG-VNPADDLVFLQNLD 120

Query: 121 ASFEEMLHGFF 126
            +F EM +GF+
Sbjct: 121 GNFAEMFNGFW 123

[Close]

BLAST of CmoCh04G013940 vs. NCBI nr
Match: gi|449449264|ref|XP_004142385.1| (PREDICTED: uncharacterized protein LOC101217123 [Cucumis sativus])

HSP 1 Score: 118.2 bits (295), Expect = 1.0e-23
Identity = 72/131 (54.96%), Postives = 96/131 (73.28%), Query Frame = 1


Query: 1   MDVIGKKPPKRTKKSA-AGFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFMELIA 60
           M V GKK  KR+KKSA AGFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAE FME+ +
Sbjct: 1   MIVTGKKQAKRSKKSAGAGFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAERFMEMAS 60

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

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

[Close]

BLAST of CmoCh04G013940 vs. NCBI nr
Match: gi|645251336|ref|XP_008231630.1| (PREDICTED: uncharacterized protein LOC103330797 [Prunus mume])

HSP 1 Score: 80.9 bits (198), Expect = 1.8e-12
Identity = 51/93 (54.84%), Postives = 63/93 (67.74%), Query Frame = 1


Query: 1  MDVIG----KKPPKRTKKSAA-GFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFM 60
          MDV+G    K PPK++K+S + G KVVYISSPMKVKTSASKFR+LVQ+LTG+DSDAE FM
Sbjct: 1  MDVLGENHMKSPPKQSKRSKSKGVKVVYISSPMKVKTSASKFRALVQELTGRDSDAERFM 60

Query: 61 ELIAADRNFQSSAFLDYQILGDDNLIDRDHRLV 89
          E   A          + Q+ G    +D DH L+
Sbjct: 61 ETKGAHYQNVHEFTHEQQLKG----VDHDHGLL 89

[Close]

BLAST of CmoCh04G013940 vs. NCBI nr
Match: gi|802574171|ref|XP_012068696.1| (PREDICTED: uncharacterized protein LOC105631246 [Jatropha curcas])

HSP 1 Score: 80.5 bits (197), Expect = 2.3e-12
Identity = 54/128 (42.19%), Postives = 73/128 (57.03%), Query Frame = 1


Query: 1   MDVIG--KKPPKRTKKSAAGFKVVYISSPMKVKTSASKFRSLVQKLTGQDSDAESFMELI 60
           MDV+G   K  ++ K+S    KVVYISSPMKV+TSASKFR+LVQ+LTG+DSDA  FM++ 
Sbjct: 1   MDVLGVNMKNKRQAKRSKKAIKVVYISSPMKVQTSASKFRALVQELTGKDSDAARFMDVN 60

Query: 61  AADRNFQSSAFLDYQILGDDNLIDRDHRLVAGKIETAAYQSLVAPPEDDFVLQNFDASFE 120
             D+N  SS     +IL D   +D     V   +  +   S    P+ DFV ++ D    
Sbjct: 61  GGDQNLNSSP----EIL-DQTGVDGQGSFVP-SLMNSCNDSSSTSPDSDFVFESLDRYLP 120

Query: 121 EMLHGFFA 127
            M   F +
Sbjct: 121 PMEGSFMS 122

The following BLAST results are available for this feature:

BLAST of CmoCh04G013940 vs. Swiss-Prot


Match Name	E-value	Identity	Description
SIB1_ARATH	1.5e-06	36.15	Sigma factor binding protein 1, chloroplastic OS=Arabidopsis thaliana GN=SIB1 PE...	[more]

BLAST of CmoCh04G013940 vs. TrEMBL


Match Name	E-value	Identity	Description
D1MWZ4_CITLA	1.3e-33	67.41	Sigma factor binding protein 1 OS=Citrullus lanatus subsp. vulgaris GN=CitSIB PE...	[more]
A0A0A0KTR9_CUCSA	7.0e-24	54.96	Uncharacterized protein OS=Cucumis sativus GN=Csa_5G623915 PE=4 SV=1	[more]
A0A067L8W8_JATCU	1.6e-12	42.19	Uncharacterized protein OS=Jatropha curcas GN=JCGZ_24548 PE=4 SV=1	[more]
M5XE50_PRUPE	2.8e-12	55.95	Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa013276mg PE=4 SV=1	[more]
A0A022RSA8_ERYGU	2.6e-10	41.22	Uncharacterized protein OS=Erythranthe guttata GN=MIMGU_mgv1a015864mg PE=4 SV=1	[more]

BLAST of CmoCh04G013940 vs. TAIR10


Match Name	E-value	Identity	Description
AT3G56710.1	8.2e-08	36.15	sigma factor binding protein 1	[more]

BLAST of CmoCh04G013940 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|270309002\|dbj\|BAI52954.1\|	1.8e-33	67.41	sigma factor binding protein 1 [Citrullus lanatus subsp. vulgaris]	[more]
gi\|659092245\|ref\|XP_008446972.1\|	4.5e-24	58.78	PREDICTED: sigma factor binding protein 1, chloroplastic-like [Cucumis melo]	[more]
gi\|449449264\|ref\|XP_004142385.1\|	1.0e-23	54.96	PREDICTED: uncharacterized protein LOC101217123 [Cucumis sativus]	[more]
gi\|645251336\|ref\|XP_008231630.1\|	1.8e-12	54.84	PREDICTED: uncharacterized protein LOC103330797 [Prunus mume]	[more]
gi\|802574171\|ref\|XP_012068696.1\|	2.3e-12	42.19	PREDICTED: uncharacterized protein LOC105631246 [Jatropha curcas]	[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
CmoCh04G013940.1	CmoCh04G013940.1	mRNA

InterPro

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


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR008889	VQ	PFAM	PF05678	VQ	coord: 24..50 score: 8.3
None	No IPR available	PANTHER	PTHR33624	FAMILY NOT NAMED	coord: 5..63 score: 4.2

Synteny

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


Gene	Orthologue	Organism	Block
CmoCh04G013940	Cucsa.307850	Cucumber (Gy14) v1	cgycmoB0848
CmoCh04G013940	CmaCh18G008500	Cucurbita maxima (Rimu)	cmacmoB420
CmoCh04G013940	CmaCh04G013220	Cucurbita maxima (Rimu)	cmacmoB728
CmoCh04G013940	Cla009928	Watermelon (97103) v1	cmowmB701
CmoCh04G013940	MELO3C012484	Melon (DHL92) v3.5.1	cmomeB631
CmoCh04G013940	ClCG05G026910	Watermelon (Charleston Gray)	cmowcgB662
CmoCh04G013940	Lsi04G000180	Bottle gourd (USVL1VR-Ls)	cmolsiB660
CmoCh04G013940	MELO3C012484.2	Melon (DHL92) v3.6.1	cmomedB720
CmoCh04G013940	CsaV3_5G036860	Cucumber (Chinese Long) v3	cmocucB0874
CmoCh04G013940	Cla97C05G109160	Watermelon (97103) v2	cmowmbB737
CmoCh04G013940	Bhi07G001017	Wax gourd	cmowgoB0891
CmoCh04G013940	CsGy5G027140	Cucumber (Gy14) v2	cgybcmoB650
CmoCh04G013940	Carg02002	Silver-seed gourd	carcmoB1138
CmoCh04G013940	Carg14413	Silver-seed gourd	carcmoB0987

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CmoCh04G013940	Cucurbita moschata (Rifu)	cmocmoB336
CmoCh04G013940	Wild cucumber (PI 183967)	cmocpiB745
CmoCh04G013940	Cucumber (Chinese Long) v2	cmocuB738
CmoCh04G013940	Cucurbita pepo (Zucchini)	cmocpeB648
CmoCh04G013940	Cucurbita pepo (Zucchini)	cmocpeB651
CmoCh04G013940	Cucurbita pepo (Zucchini)	cmocpeB673