CmaCh06G000260 (gene) Cucurbita maxima (Rimu) v1.1

Overview


Name	CmaCh06G000260
Type	gene
Organism	Cucurbita maxima (Cucurbita maxima (Rimu) v1.1)
Description	sigma factor binding protein 2, chloroplastic-like
Location	Cma_Chr06: 162440 .. 163058 (+)
RNA-Seq Expression	CmaCh06G000260
Synteny	CmaCh06G000260

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptide

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

ATGGAATCCAGTTTAGTTGGGAGGGACGTGGAAGAGGGGAGGAAAGAAAGGAGAAGGAAAAGGAAACCCTGTGATCGGAAGAACCAACCTCTCAAAGTTGTGTACATATCCAACCCCATGAGGGTTCGAGCCAGTGCGGCTGAATTTAGAGGCCTGGTTCAAGAACTCACCGGCCAGGATGCGCCTAAGTTTCCTCCTTCCGCCTCCTCGGCCTCGGCGGAGACTCCGGAGACCAATGTTCGAAAGATACAAGACGATGATGATGATGAACAACTCTTACTGCACTGGGCTGCAATGGAGGATTCCAGTGATGATTTTCTTGCGGGGTCGTATGAGAGCTTGGAGGGTATTTTAATGAGGGATATGGTGGACAAATTGGCGGCTTGACTTAAAGTACCTTCATCTCAGGTAATTGTTTATTATCGAGGGTATGTGAAAATAAAGGAATCATCCACATATTATCCGTTAAATTGCATATTTCGTTTTGAGTCTGGTTCACCTACTTTTAATTGAACCTGCAACAAATTTGGTATCAAAGTAACGTATACTATCACCGTCCAAATTTGGTCATATTGTTGTAGTGTTTAGAGATGGCTGGTGTAATTTTTTCCCACAGTAA

mRNA sequence

ATGGAATCCAGTTTAGTTGGGAGGGACGTGGAAGAGGGGAGGAAAGAAAGGAGAAGGAAAAGGAAACCCTGTGATCGGAAGAACCAACCTCTCAAAGTTGTGTACATATCCAACCCCATGAGGGTTCGAGCCAGTGCGGCTGAATTTAGAGGCCTGGTTCAAGAACTCACCGGCCAGGATGCGCCTAAGTTTCCTCCTTCCGCCTCCTCGGCCTCGGCGGAGACTCCGGAGACCAATGTTCGAAAGATACAAGACGATGATGATGATGAACAACTCTTACTGCACTGGGCTGCAATGGAGGATTCCAGTGATGATTTTCTTGCGGGGTCTACCTTCATCTCAGTGTTTAGAGATGGCTGGTGTAATTTTTTCCCACAGTAA

Coding sequence (CDS)

ATGGAATCCAGTTTAGTTGGGAGGGACGTGGAAGAGGGGAGGAAAGAAAGGAGAAGGAAAAGGAAACCCTGTGATCGGAAGAACCAACCTCTCAAAGTTGTGTACATATCCAACCCCATGAGGGTTCGAGCCAGTGCGGCTGAATTTAGAGGCCTGGTTCAAGAACTCACCGGCCAGGATGCGCCTAAGTTTCCTCCTTCCGCCTCCTCGGCCTCGGCGGAGACTCCGGAGACCAATGTTCGAAAGATACAAGACGATGATGATGATGAACAACTCTTACTGCACTGGGCTGCAATGGAGGATTCCAGTGATGATTTTCTTGCGGGGTCTACCTTCATCTCAGTGTTTAGAGATGGCTGGTGTAATTTTTTCCCACAGTAA

Protein sequence

MESSLVGRDVEEGRKERRRKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQDAPKFPPSASSASAETPETNVRKIQDDDDDEQLLLHWAAMEDSSDDFLAGSTFISVFRDGWCNFFPQ

Homology

[Close]

BLAST of CmaCh06G000260 vs. ExPASy Swiss-Prot
Match: Q9LDH1 (Sigma factor binding protein 1, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=SIB1 PE=1 SV=1)

HSP 1 Score: 56.6 bits (135), Expect = 2.3e-07
Identity = 34/73 (46.58%), Postives = 46/73 (63.01%), Query Frame = 0


Query: 14 RKERRRKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQDA------PKFPPS 73
          RK  ++K+K     N+P+KV YISNPMRV+  A++FR LVQELTGQDA      P + PS
Sbjct: 24 RKSPKQKKKTTS-TNKPIKVRYISNPMRVQTCASKFRELVQELTGQDAVDLQPEPIYSPS 83

Query: 74 ASSASAETPETNV 81
          +   +   P  N+
Sbjct: 84 SDDHNLSPPAENL 95

[Close]

BLAST of CmaCh06G000260 vs. ExPASy Swiss-Prot
Match: O80669 (Sigma factor binding protein 2, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=SIB2 PE=1 SV=1)

HSP 1 Score: 55.5 bits (132), Expect = 5.2e-07
Identity = 27/55 (49.09%), Postives = 39/55 (70.91%), Query Frame = 0


Query: 19 RKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQDAPKFPPSASSASA 74
          ++++     ++P+KV YISNPMRV    ++FR LVQELTGQDA   PPS ++ +A
Sbjct: 25 KQKRKSTTTHKPIKVRYISNPMRVETCPSKFRELVQELTGQDAADLPPSPTTFTA 79

[Close]

BLAST of CmaCh06G000260 vs. ExPASy TrEMBL
Match: A0A6J1FKR4 (uncharacterized protein LOC111446639 OS=Cucurbita moschata OX=3662 GN=LOC111446639 PE=4 SV=1)

HSP 1 Score: 204.5 bits (519), Expect = 2.6e-49
Identity = 104/110 (94.55%), Postives = 106/110 (96.36%), Query Frame = 0


Query: 1   MESSLVGRDVEEGRKERRRKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQD 60
           MESSLVGRDVEEGRKERRR RKPCDRKNQPLKVVYISNPMRV+ASAAEFRGLVQELTGQD
Sbjct: 1   MESSLVGRDVEEGRKERRRNRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQELTGQD 60

Query: 61  APKFPPSASSASAETPETNVRKIQDDDDDEQLLLHWAAMEDSSDDFLAGS 111
           APKFPPSASSAS +TPETNVRKIQDDDDDEQLLLHWAAMEDSSD FL GS
Sbjct: 61  APKFPPSASSASVQTPETNVRKIQDDDDDEQLLLHWAAMEDSSDGFLGGS 110

[Close]

BLAST of CmaCh06G000260 vs. ExPASy TrEMBL
Match: A0A6J1D137 (sigma factor binding protein 2, chloroplastic-like OS=Momordica charantia OX=3673 GN=LOC111016633 PE=4 SV=1)

HSP 1 Score: 94.0 bits (232), Expect = 4.9e-16
Identity = 61/110 (55.45%), Postives = 77/110 (70.00%), Query Frame = 0


Query: 1   MESSLVGRDVEEGRKERRRKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQD 60
           M+ +L+  ++E  +KE  RKRK   +KNQPLKVVYISNPMRV  SA+EFR LVQELTG+D
Sbjct: 1   MDRNLIVSEMEPMKKE-TRKRKLSVQKNQPLKVVYISNPMRVHTSASEFRALVQELTGRD 60

Query: 61  APKFPPSAS--SASAETPETNVRKIQDDDDDEQLLLHWA-AMEDSSDDFL 108
           A +FP  A    AS +  E N+ K ++ DDDE+  L  A  MEDS+DDFL
Sbjct: 61  A-EFPDPAKFHQASIDVGEMNLEKNREGDDDEEASLDVATTMEDSNDDFL 108

[Close]

BLAST of CmaCh06G000260 vs. ExPASy TrEMBL
Match: A0A5D3DPQ4 (Sigma factor binding protein 2 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold352G006730 PE=4 SV=1)

HSP 1 Score: 77.8 bits (190), Expect = 3.6e-11
Identity = 50/107 (46.73%), Postives = 65/107 (60.75%), Query Frame = 0


Query: 14  RKERRRKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQDA-----PKFPPSA 73
           +K+  RKRK C+   QPLKVVYISNPMRV  SA+EFR LVQELTG+DA      KF P++
Sbjct: 17  KKKTTRKRKSCEENKQPLKVVYISNPMRVHTSASEFRALVQELTGRDAEFPDPSKFYPAS 76

Query: 74  SSASAETPETNVRKIQDDDDDEQLLLHWAAMEDSSDDFLAGSTFISV 116
                   E  V   Q +DD+++LL+     + S DD    S+F S+
Sbjct: 77  CEIVMNDLEKKVVADQGEDDEQELLI-----DSSCDDDFWRSSFESL 118

[Close]

BLAST of CmaCh06G000260 vs. ExPASy TrEMBL
Match: A0A1S3B8H6 (uncharacterized protein LOC103487167 OS=Cucumis melo OX=3656 GN=LOC103487167 PE=4 SV=1)

HSP 1 Score: 77.8 bits (190), Expect = 3.6e-11
Identity = 50/107 (46.73%), Postives = 65/107 (60.75%), Query Frame = 0


Query: 14  RKERRRKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQDA-----PKFPPSA 73
           +K+  RKRK C+   QPLKVVYISNPMRV  SA+EFR LVQELTG+DA      KF P++
Sbjct: 17  KKKTTRKRKSCEENKQPLKVVYISNPMRVHTSASEFRALVQELTGRDAEFPDPSKFYPAS 76

Query: 74  SSASAETPETNVRKIQDDDDDEQLLLHWAAMEDSSDDFLAGSTFISV 116
                   E  V   Q +DD+++LL+     + S DD    S+F S+
Sbjct: 77  CEIVMNDLEKKVVADQGEDDEQELLI-----DSSCDDDFWRSSFESL 118

[Close]

BLAST of CmaCh06G000260 vs. ExPASy TrEMBL
Match: A0A0A0LFH5 (VQ domain-containing protein OS=Cucumis sativus OX=3659 GN=Csa_3G820480 PE=4 SV=1)

HSP 1 Score: 74.7 bits (182), Expect = 3.1e-10
Identity = 50/101 (49.50%), Postives = 64/101 (63.37%), Query Frame = 0


Query: 19  RKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQDA-----PKFPPSASS--A 78
           RKRK C+   QPLKVVYISNPMRV  SA+EFR LVQELTG+DA      KF P++S    
Sbjct: 22  RKRKSCEENKQPLKVVYISNPMRVHTSASEFRALVQELTGRDAEFPDPTKFYPASSCEIM 81

Query: 79  SAETPETNVRKIQDDDDDEQLLLHWAAMEDSS--DDFLAGS 111
           + +  E  V   + ++D+++LL+      DSS  DDFL  S
Sbjct: 82  NDDDVEKKVVAAEGEEDEQELLI------DSSCDDDFLRSS 116

[Close]

BLAST of CmaCh06G000260 vs. NCBI nr
Match: XP_022941301.1 (uncharacterized protein LOC111446639 [Cucurbita moschata])

HSP 1 Score: 204.5 bits (519), Expect = 5.3e-49
Identity = 104/110 (94.55%), Postives = 106/110 (96.36%), Query Frame = 0


Query: 1   MESSLVGRDVEEGRKERRRKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQD 60
           MESSLVGRDVEEGRKERRR RKPCDRKNQPLKVVYISNPMRV+ASAAEFRGLVQELTGQD
Sbjct: 1   MESSLVGRDVEEGRKERRRNRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQELTGQD 60

Query: 61  APKFPPSASSASAETPETNVRKIQDDDDDEQLLLHWAAMEDSSDDFLAGS 111
           APKFPPSASSAS +TPETNVRKIQDDDDDEQLLLHWAAMEDSSD FL GS
Sbjct: 61  APKFPPSASSASVQTPETNVRKIQDDDDDEQLLLHWAAMEDSSDGFLGGS 110

[Close]

BLAST of CmaCh06G000260 vs. NCBI nr
Match: KAG7027710.1 (Sigma factor binding protein 1, chloroplastic, partial [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 199.5 bits (506), Expect = 1.7e-47
Identity = 102/109 (93.58%), Postives = 104/109 (95.41%), Query Frame = 0


Query: 1   MESSLVGRDVEEGRKERRRKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQD 60
           MESSLVGR+VEE RKERRR RKPCDRKNQPLKVVYISNPMRV+ASAAEFRGLVQELTGQD
Sbjct: 1   MESSLVGREVEEERKERRRNRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQELTGQD 60

Query: 61  APKFPPSASSASAETPETNVRKIQDDDDDEQLLLHWAAMEDSSDDFLAG 110
           APKFPPSASSAS ETPETNVRKIQDDDDDEQLLLHWAAMEDSSD FL G
Sbjct: 61  APKFPPSASSASVETPETNVRKIQDDDDDEQLLLHWAAMEDSSDGFLGG 109

[Close]

BLAST of CmaCh06G000260 vs. NCBI nr
Match: KAG6596170.1 (Sigma factor binding protein 1, chloroplastic, partial [Cucurbita argyrosperma subsp. sororia])

HSP 1 Score: 194.9 bits (494), Expect = 4.2e-46
Identity = 102/110 (92.73%), Postives = 104/110 (94.55%), Query Frame = 0


Query: 1   MESSLVGRDVEEGRKERRRKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQD 60
           MESSLVGR+VEE RKERRR RKPCDRKNQPLKVVYISNPMRV+ASAAEFRGLVQELTGQD
Sbjct: 1   MESSLVGREVEEERKERRRNRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQELTGQD 60

Query: 61  APKFPPSASSASAETPETNVRKIQ-DDDDDEQLLLHWAAMEDSSDDFLAG 110
           APKFPPSASSAS ETPETNVRKIQ DDDDDEQLLLHWAAMEDSSD FL G
Sbjct: 61  APKFPPSASSASVETPETNVRKIQDDDDDDEQLLLHWAAMEDSSDGFLGG 110

[Close]

BLAST of CmaCh06G000260 vs. NCBI nr
Match: XP_023539403.1 (uncharacterized protein LOC111800056 [Cucurbita pepo subsp. pepo])

HSP 1 Score: 188.3 bits (477), Expect = 3.9e-44
Identity = 102/114 (89.47%), Postives = 105/114 (92.11%), Query Frame = 0


Query: 1   MESSLVGRDVEEGRKERRRKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQD 60
           MESSLVGRDVEEGRKERRRKRKPCDRKNQPLKVVYISNPMRV+ASAAEFRGLVQ+LTGQD
Sbjct: 1   MESSLVGRDVEEGRKERRRKRKPCDRKNQPLKVVYISNPMRVQASAAEFRGLVQQLTGQD 60

Query: 61  APKFPPSASSASAETPETNVRKIQ--DDDDDEQLLLHWAA--MEDSSDDFLAGS 111
           APKFPP   SAS ETPETNVRKIQ  DDDDD+QLLLHWAA  MEDSSDDFL GS
Sbjct: 61  APKFPP---SASVETPETNVRKIQDDDDDDDQQLLLHWAAAIMEDSSDDFLGGS 111

[Close]

BLAST of CmaCh06G000260 vs. NCBI nr
Match: XP_022147780.1 (sigma factor binding protein 2, chloroplastic-like [Momordica charantia])

HSP 1 Score: 94.0 bits (232), Expect = 1.0e-15
Identity = 61/110 (55.45%), Postives = 77/110 (70.00%), Query Frame = 0


Query: 1   MESSLVGRDVEEGRKERRRKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQD 60
           M+ +L+  ++E  +KE  RKRK   +KNQPLKVVYISNPMRV  SA+EFR LVQELTG+D
Sbjct: 1   MDRNLIVSEMEPMKKE-TRKRKLSVQKNQPLKVVYISNPMRVHTSASEFRALVQELTGRD 60

Query: 61  APKFPPSAS--SASAETPETNVRKIQDDDDDEQLLLHWA-AMEDSSDDFL 108
           A +FP  A    AS +  E N+ K ++ DDDE+  L  A  MEDS+DDFL
Sbjct: 61  A-EFPDPAKFHQASIDVGEMNLEKNREGDDDEEASLDVATTMEDSNDDFL 108

[Close]

BLAST of CmaCh06G000260 vs. TAIR 10
Match: AT3G56710.1 (sigma factor binding protein 1 )

HSP 1 Score: 56.6 bits (135), Expect = 1.7e-08
Identity = 34/73 (46.58%), Postives = 46/73 (63.01%), Query Frame = 0


Query: 14 RKERRRKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQDA------PKFPPS 73
          RK  ++K+K     N+P+KV YISNPMRV+  A++FR LVQELTGQDA      P + PS
Sbjct: 24 RKSPKQKKKTTS-TNKPIKVRYISNPMRVQTCASKFRELVQELTGQDAVDLQPEPIYSPS 83

Query: 74 ASSASAETPETNV 81
          +   +   P  N+
Sbjct: 84 SDDHNLSPPAENL 95

[Close]

BLAST of CmaCh06G000260 vs. TAIR 10
Match: AT2G41180.1 (VQ motif-containing protein )

HSP 1 Score: 55.5 bits (132), Expect = 3.7e-08
Identity = 27/55 (49.09%), Postives = 39/55 (70.91%), Query Frame = 0


Query: 19 RKRKPCDRKNQPLKVVYISNPMRVRASAAEFRGLVQELTGQDAPKFPPSASSASA 74
          ++++     ++P+KV YISNPMRV    ++FR LVQELTGQDA   PPS ++ +A
Sbjct: 25 KQKRKSTTTHKPIKVRYISNPMRVETCPSKFRELVQELTGQDAADLPPSPTTFTA 79

The following BLAST results are available for this feature:

BLAST of CmaCh06G000260 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q9LDH1	2.3e-07	46.58	Sigma factor binding protein 1, chloroplastic OS=Arabidopsis thaliana OX=3702 GN...	[more]
O80669	5.2e-07	49.09	Sigma factor binding protein 2, chloroplastic OS=Arabidopsis thaliana OX=3702 GN...	[more]

BLAST of CmaCh06G000260 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6J1FKR4	2.6e-49	94.55	uncharacterized protein LOC111446639 OS=Cucurbita moschata OX=3662 GN=LOC1114466...	[more]
A0A6J1D137	4.9e-16	55.45	sigma factor binding protein 2, chloroplastic-like OS=Momordica charantia OX=367...	[more]
A0A5D3DPQ4	3.6e-11	46.73	Sigma factor binding protein 2 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_s...	[more]
A0A1S3B8H6	3.6e-11	46.73	uncharacterized protein LOC103487167 OS=Cucumis melo OX=3656 GN=LOC103487167 PE=...	[more]
A0A0A0LFH5	3.1e-10	49.50	VQ domain-containing protein OS=Cucumis sativus OX=3659 GN=Csa_3G820480 PE=4 SV=...	[more]

BLAST of CmaCh06G000260 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_022941301.1	5.3e-49	94.55	uncharacterized protein LOC111446639 [Cucurbita moschata]	[more]
KAG7027710.1	1.7e-47	93.58	Sigma factor binding protein 1, chloroplastic, partial [Cucurbita argyrosperma s...	[more]
KAG6596170.1	4.2e-46	92.73	Sigma factor binding protein 1, chloroplastic, partial [Cucurbita argyrosperma s...	[more]
XP_023539403.1	3.9e-44	89.47	uncharacterized protein LOC111800056 [Cucurbita pepo subsp. pepo]	[more]
XP_022147780.1	1.0e-15	55.45	sigma factor binding protein 2, chloroplastic-like [Momordica charantia]	[more]

BLAST of CmaCh06G000260 vs. TAIR 10


Match Name	E-value	Identity	Description
AT3G56710.1	1.7e-08	46.58	sigma factor binding protein 1	[more]
AT2G41180.1	3.7e-08	49.09	VQ motif-containing protein	[more]

InterPro

Analysis Name: InterPro Annotations of Cucurbita maxima (Rimu) v1.1
Date Performed: 2021-10-25

Position :

Zoom :

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IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR008889	VQ	PFAM	PF05678	VQ	coord: 36..62 e-value: 2.1E-10 score: 39.9
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 1..29
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 1..18
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 63..78
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 57..85
None	No IPR available	PANTHER	PTHR33624:SF2	SIGMA FACTOR BINDING PROTEIN 1, CHLOROPLASTIC	coord: 15..102
IPR039335	Sigma factor binding protein 1/2	PANTHER	PTHR33624	SIGMA FACTOR BINDING PROTEIN 1, CHLOROPLASTIC	coord: 15..102

Relationships

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


Feature Name	Unique Name	Type
CmaCh06G000260.1	CmaCh06G000260.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0051091	positive regulation of DNA-binding transcription factor activity