CmoCh12G011610 (gene) Cucurbita moschata (Rifu) v1

Overview


Name	CmoCh12G011610
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu) v1)
Description	VQ domain-containing protein
Location	Cmo_Chr12: 10509784 .. 10510161 (+)
RNA-Seq Expression	CmoCh12G011610
Synteny	CmoCh12G011610

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.

ATGGAGAATCTTAAAAGCCTTCCTAATCATCTTCGTCACGAGAAACTCGAAGCTTCGAACTACCGAGCAACAATGGCGAACAAACCCATCAAAGTTAAGTACATTTCAAGTCCCATGATGGTGAAGGCCAACAACGAGTTTGAGTTTCGAGCCATAGTTCAGAAGCTCACCGGCCAACACTCGGCCGATGATGCTTTTGATCGATCACCTCAAGAATTCAACCATGCTTTTTGTCCCCCGTCGTCTACGGTGACTTCTTTTGACTCGAAGGATTGTTATGATTTGGTTTCTAGTGATGCTTACGATCCGATCGGGGTCGGTGAAATGAAAGATTCTTTATATGGGTTTCAAGCTTCTTATGTTGATGTATGGAGATGA

mRNA sequence

ATGGAGAATCTTAAAAGCCTTCCTAATCATCTTCGTCACGAGAAACTCGAAGCTTCGAACTACCGAGCAACAATGGCGAACAAACCCATCAAAGTTAAGTACATTTCAAGTCCCATGATGGTGAAGGCCAACAACGAGTTTGAGTTTCGAGCCATAGTTCAGAAGCTCACCGGCCAACACTCGGCCGATGATGCTTTTGATCGATCACCTCAAGAATTCAACCATGCTTTTTGTCCCCCGTCGTCTACGGTGACTTCTTTTGACTCGAAGGATTGTTATGATTTGGTTTCTAGTGATGCTTACGATCCGATCGGGGTCGGTGAAATGAAAGATTCTTTATATGGGTTTCAAGCTTCTTATGTTGATGTATGGAGATGA

Coding sequence (CDS)

ATGGAGAATCTTAAAAGCCTTCCTAATCATCTTCGTCACGAGAAACTCGAAGCTTCGAACTACCGAGCAACAATGGCGAACAAACCCATCAAAGTTAAGTACATTTCAAGTCCCATGATGGTGAAGGCCAACAACGAGTTTGAGTTTCGAGCCATAGTTCAGAAGCTCACCGGCCAACACTCGGCCGATGATGCTTTTGATCGATCACCTCAAGAATTCAACCATGCTTTTTGTCCCCCGTCGTCTACGGTGACTTCTTTTGACTCGAAGGATTGTTATGATTTGGTTTCTAGTGATGCTTACGATCCGATCGGGGTCGGTGAAATGAAAGATTCTTTATATGGGTTTCAAGCTTCTTATGTTGATGTATGGAGATGA

Protein sequence

MENLKSLPNHLRHEKLEASNYRATMANKPIKVKYISSPMMVKANNEFEFRAIVQKLTGQHSADDAFDRSPQEFNHAFCPPSSTVTSFDSKDCYDLVSSDAYDPIGVGEMKDSLYGFQASYVDVWR

Homology

[Close]

BLAST of CmoCh12G011610 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: 49.7 bits (117), Expect = 2.8e-05
Identity = 32/91 (35.16%), Postives = 50/91 (54.95%), Query Frame = 0


Query: 22  RATMANKPIKVKYISSPMMVKANNEFEFRAIVQKLTGQHSADDAFD--RSPQEFNHAFCP 81
           + T  NKPIKV+YIS+PM V+     +FR +VQ+LTGQ + D   +   SP   +H   P
Sbjct: 32  KTTSTNKPIKVRYISNPMRVQTCAS-KFRELVQELTGQDAVDLQPEPIYSPSSDDHNLSP 91

Query: 82  PSSTVT-SFDSKDCYDLVSSDAYDPIGVGEM 110
           P+  +      ++ +    SD Y+P+   +M
Sbjct: 92  PAENLAPRVLHQEPFGERDSDCYEPLNAEDM 121

[Close]

BLAST of CmoCh12G011610 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: 45.4 bits (106), Expect = 5.3e-04
Identity = 36/107 (33.64%), Postives = 52/107 (48.60%), Query Frame = 0


Query: 22  RATMANKPIKVKYISSPMMVKANNEFEFRAIVQKLTGQHSADDAFDRSPQEFN----HAF 81
           ++T  +KPIKV+YIS+PM V+     +FR +VQ+LTGQ +AD     SP  F     H  
Sbjct: 29  KSTTTHKPIKVRYISNPMRVETCPS-KFRELVQELTGQDAAD--LPPSPTTFTAVDLHRP 88

Query: 82  CPPSSTVTSFDSKDCYDLVSSDAYDPI-----GVGEMKDSLYGFQAS 120
           C     +   D +     V  + Y P+        +M   L GF +S
Sbjct: 89  CESEMNLEPLDGE-----VRGEYYSPLDEEVFNAPQMSAGLSGFFSS 127

[Close]

BLAST of CmoCh12G011610 vs. ExPASy TrEMBL
Match: A0A6J1FJE0 (sigma factor binding protein 1, chloroplastic-like OS=Cucurbita moschata OX=3662 GN=LOC111444440 PE=4 SV=1)

HSP 1 Score: 257.3 bits (656), Expect = 3.3e-65
Identity = 125/125 (100.00%), Postives = 125/125 (100.00%), Query Frame = 0


Query: 1   MENLKSLPNHLRHEKLEASNYRATMANKPIKVKYISSPMMVKANNEFEFRAIVQKLTGQH 60
           MENLKSLPNHLRHEKLEASNYRATMANKPIKVKYISSPMMVKANNEFEFRAIVQKLTGQH
Sbjct: 1   MENLKSLPNHLRHEKLEASNYRATMANKPIKVKYISSPMMVKANNEFEFRAIVQKLTGQH 60

Query: 61  SADDAFDRSPQEFNHAFCPPSSTVTSFDSKDCYDLVSSDAYDPIGVGEMKDSLYGFQASY 120
           SADDAFDRSPQEFNHAFCPPSSTVTSFDSKDCYDLVSSDAYDPIGVGEMKDSLYGFQASY
Sbjct: 61  SADDAFDRSPQEFNHAFCPPSSTVTSFDSKDCYDLVSSDAYDPIGVGEMKDSLYGFQASY 120

Query: 121 VDVWR 126
           VDVWR
Sbjct: 121 VDVWR 125

[Close]

BLAST of CmoCh12G011610 vs. ExPASy TrEMBL
Match: A0A5A7VDH6 (VQ motif-containing protein OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold285G001220 PE=4 SV=1)

HSP 1 Score: 117.5 bits (293), Expect = 4.1e-23
Identity = 77/145 (53.10%), Postives = 90/145 (62.07%), Query Frame = 0


Query: 1   MENL-KSLPNHLRHEKLEASNYRAT---MANKPIKVKYISSPMMVKANNEFEFRAIVQKL 60
           MENL  +LP    H K+  ++ + T     NKPIKVKYISSPMMVKANNE EFRAIVQKL
Sbjct: 1   MENLITTLPTDFHHRKVSQNSNKPTTIDQQNKPIKVKYISSPMMVKANNESEFRAIVQKL 60

Query: 61  TGQHSAD-DA-FDRSPQEFNHAFCPP----SSTVTSFDSKDCYDLVSSDAYDPIGV---- 120
           TGQHS D DA FD+S Q+FNHAF PP    S+   SFD +DCY   S D      +    
Sbjct: 61  TGQHSPDHDANFDQSVQDFNHAFYPPPPSSSTPGVSFDPRDCYGSASGDVLFDDRIEDGD 120

Query: 121 ------GEMKDSLYGFQA-SYVDVW 125
                 GEM+ S  GFQA S V++W
Sbjct: 121 EGRYWRGEMEGSFSGFQASSCVNIW 145

[Close]

BLAST of CmoCh12G011610 vs. ExPASy TrEMBL
Match: A0A0A0LFF9 (VQ domain-containing protein OS=Cucumis sativus OX=3659 GN=Csa_2G010160 PE=4 SV=1)

HSP 1 Score: 114.8 bits (286), Expect = 2.6e-22
Identity = 74/141 (52.48%), Postives = 88/141 (62.41%), Query Frame = 0


Query: 1   MENLKSLPNHLRHEKLEASNYRATM--ANKPIKVKYISSPMMVKANNEFEFRAIVQKLTG 60
           MEN  +LP++  H+K+   + +AT+   NKPIKVKYISSPMMVKANNE EFRAIVQKLTG
Sbjct: 1   MENFTTLPSNFHHKKVSQVSNKATIDHQNKPIKVKYISSPMMVKANNESEFRAIVQKLTG 60

Query: 61  QHSADDAFDRSPQEFNHAFCPP---SSTVTSFDSKDCY----------DLVSSDAYDPIG 120
           QHS D   D+S Q+FNH F PP   SS   SFD KDCY          D +         
Sbjct: 61  QHSPDHD-DQSVQDFNHVFYPPPPSSSPGVSFDPKDCYGNSASGDVLFDRIEDGDEGRYW 120

Query: 121 VGEMK-DSLYGFQA-SYVDVW 125
            GEM+  S  GFQA S V++W
Sbjct: 121 RGEMELGSFSGFQASSCVNIW 140

[Close]

BLAST of CmoCh12G011610 vs. ExPASy TrEMBL
Match: A0A6J1CME4 (sigma factor binding protein 1, chloroplastic-like OS=Momordica charantia OX=3673 GN=LOC111012954 PE=4 SV=1)

HSP 1 Score: 90.1 bits (222), Expect = 7.0e-15
Identity = 57/111 (51.35%), Postives = 68/111 (61.26%), Query Frame = 0


Query: 28  KPIKVKYISSPMMVKANNEFEFRAIVQKLTGQHSADDAFDR----SPQEFNHAFC-PPSS 87
           KPIKVKYIS+PMMVKAN+E EFR IVQ+LTGQ+S DDAF+       +E NHAF  PP S
Sbjct: 3   KPIKVKYISNPMMVKANSESEFREIVQRLTGQNSPDDAFESPAFGGEEELNHAFYPPPPS 62

Query: 88  TVTSFDSKDCYDLVSSDAYDPIGVGEMKDSLY---------GFQASYVDVW 125
           T  S D K  Y LVS        VGE+ +  +         GFQAS V+ +
Sbjct: 63  TAVSTDPKGYYGLVSGK------VGELGEGCFRQDEMQGFSGFQASCVNTY 107

[Close]

BLAST of CmoCh12G011610 vs. ExPASy TrEMBL
Match: A0A7N2L612 (VQ domain-containing protein OS=Quercus lobata OX=97700 PE=4 SV=1)

HSP 1 Score: 64.7 bits (156), Expect = 3.1e-07
Identity = 36/65 (55.38%), Postives = 44/65 (67.69%), Query Frame = 0


Query: 1  MENLKSLPNHLRHEKLEASNYRAT--MANKPIKVKYISSPMMVKANNEFEFRAIVQKLTG 60
          ME  K   NH  HE+ +  N   T  +  +P+K+KYISSPM+VKA N  EFRAIVQ+LTG
Sbjct: 1  MEMSKFANNHGLHEQPKRQNPSPTTKVKREPMKIKYISSPMLVKARNASEFRAIVQELTG 60

Query: 61 QHSAD 64
          QHS D
Sbjct: 61 QHSED 65

[Close]

BLAST of CmoCh12G011610 vs. TAIR 10
Match: AT3G56710.1 (sigma factor binding protein 1 )

HSP 1 Score: 49.7 bits (117), Expect = 2.0e-06
Identity = 32/91 (35.16%), Postives = 50/91 (54.95%), Query Frame = 0


Query: 22  RATMANKPIKVKYISSPMMVKANNEFEFRAIVQKLTGQHSADDAFD--RSPQEFNHAFCP 81
           + T  NKPIKV+YIS+PM V+     +FR +VQ+LTGQ + D   +   SP   +H   P
Sbjct: 32  KTTSTNKPIKVRYISNPMRVQTCAS-KFRELVQELTGQDAVDLQPEPIYSPSSDDHNLSP 91

Query: 82  PSSTVT-SFDSKDCYDLVSSDAYDPIGVGEM 110
           P+  +      ++ +    SD Y+P+   +M
Sbjct: 92  PAENLAPRVLHQEPFGERDSDCYEPLNAEDM 121

[Close]

BLAST of CmoCh12G011610 vs. TAIR 10
Match: AT2G41180.1 (VQ motif-containing protein )

HSP 1 Score: 45.4 bits (106), Expect = 3.8e-05
Identity = 36/107 (33.64%), Postives = 52/107 (48.60%), Query Frame = 0


Query: 22  RATMANKPIKVKYISSPMMVKANNEFEFRAIVQKLTGQHSADDAFDRSPQEFN----HAF 81
           ++T  +KPIKV+YIS+PM V+     +FR +VQ+LTGQ +AD     SP  F     H  
Sbjct: 29  KSTTTHKPIKVRYISNPMRVETCPS-KFRELVQELTGQDAAD--LPPSPTTFTAVDLHRP 88

Query: 82  CPPSSTVTSFDSKDCYDLVSSDAYDPI-----GVGEMKDSLYGFQAS 120
           C     +   D +     V  + Y P+        +M   L GF +S
Sbjct: 89  CESEMNLEPLDGE-----VRGEYYSPLDEEVFNAPQMSAGLSGFFSS 127

The following BLAST results are available for this feature:

BLAST of CmoCh12G011610 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q9LDH1	2.8e-05	35.16	Sigma factor binding protein 1, chloroplastic OS=Arabidopsis thaliana OX=3702 GN...	[more]
O80669	5.3e-04	33.64	Sigma factor binding protein 2, chloroplastic OS=Arabidopsis thaliana OX=3702 GN...	[more]

BLAST of CmoCh12G011610 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6J1FJE0	3.3e-65	100.00	sigma factor binding protein 1, chloroplastic-like OS=Cucurbita moschata OX=3662...	[more]
A0A5A7VDH6	4.1e-23	53.10	VQ motif-containing protein OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaf...	[more]
A0A0A0LFF9	2.6e-22	52.48	VQ domain-containing protein OS=Cucumis sativus OX=3659 GN=Csa_2G010160 PE=4 SV=...	[more]
A0A6J1CME4	7.0e-15	51.35	sigma factor binding protein 1, chloroplastic-like OS=Momordica charantia OX=367...	[more]
A0A7N2L612	3.1e-07	55.38	VQ domain-containing protein OS=Quercus lobata OX=97700 PE=4 SV=1	[more]

BLAST of CmoCh12G011610 vs. TAIR 10


Match Name	E-value	Identity	Description
AT3G56710.1	2.0e-06	35.16	sigma factor binding protein 1	[more]
AT2G41180.1	3.8e-05	33.64	VQ motif-containing protein	[more]

InterPro

Analysis Name: InterPro Annotations of Cucurbita moschata (Rifu) v1
Date Performed: 2021-10-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR008889	VQ	PFAM	PF05678	VQ	coord: 35..63 e-value: 1.8E-7 score: 30.5
None	No IPR available	PANTHER	PTHR33624:SF17	VQ MOTIF PROTEIN	coord: 12..116
IPR039335	Sigma factor binding protein 1/2	PANTHER	PTHR33624	SIGMA FACTOR BINDING PROTEIN 1, CHLOROPLASTIC	coord: 12..116

Relationships

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


Feature Name	Unique Name	Type
CmoCh12G011610.1	CmoCh12G011610.1	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