CmoCh03G014830 (gene) Cucurbita moschata (Rifu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmoCh03G014830
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu))
Description	RNA-binding (RRM/RBD/RNP motifs) family protein, putative
Location	Cmo_Chr03 : 10637931 .. 10638744 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSexonthree_prime_UTR

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

ATGACAGTGTTATTAGCAAAAGATCGATTAACCAAAACACCAAAAGGTTATGCGTTCATCCAATACACTAGCCAAGACGATGCGATGCTTGCGCTGGAAAATATGGATTGCAAGGTTAAACTTCATCTAGCTCTGTCATTGCCACATGAGGTAACTCATGGTTTAAAGTTAATGTACTTTCTCTGTGTCTCGAAACCAGAAATTTGATGGAAGGACGATCTATGTGGAACTTGCAAAACCTGGCAGTGGATCTTTTCGAGGATATCCGGTAACCTCTGGACCCCCGAAAGAGCGGCCTATACCTAAATTGGTGCCAGAAGAGGTAGCAGATTGCTGGTATTGATCTTGTTCTTACTGAGATACACAATATAGGACAGAGATGGGTTAACAGTTAATGACAGTTGGGCACCATGAGATCAATCCCAAAGAATCTGTGAGGGTTGAAGTGTTTGTTGTGATGGATTCCTTACATTCCTCTTAATAGTTTCAGGCTTTAGATGCTGATGCCATCCTGCAACTTTGATATCTATTTGTATTTACACTGTTTACGACACTTGATGCGTCTTCTAGTGCATATTGCTGTATGTGGCGTAGCAATTGAGATTATGGATAATGTGGTAATTCATAAAGCAAATGCTTCTACTACTCTGTTGTTTTTTGGTCCAAATTCAACGTGTATTATGTTTTTTTAGTCGGTTTTAATGTCATAACTTACACCAAACTTTTGGAATGATAATTGAAGCCTCAAGAAGTGTGCCCCATTGACTAAGATTCATAGGTTTTTAGGGACTCCTATAAGAGGTTACAGGGCGTG

mRNA sequence

ATGACAGTGTTATTAGCAAAAGATCGATTAACCAAAACACCAAAAGGTTATGCGTTCATCCAATACACTAGCCAAGACGATGCGATGCTTGCGCTGGAAAATATGGATTGCAAGGTTAAACTTCATCTAGCTCTGTCATTGCCACATGAGAAATTTGATGGAAGGACGATCTATGTGGAACTTGCAAAACCTGGCAGTGGATCTTTTCGAGGATATCCGGTAACCTCTGGACCCCCGAAAGAGCGGCCTATACCTAAATTGGTGCCAGAAGAGGTAGCAGATTGCTGGTATTGATCTTGTTCTTACTGAGATACACAATATAGGACAGAGATGGGTTAACAGTTAATGACAGTTGGGCACCATGAGATCAATCCCAAAGAATCTGTGAGGGTTGAAGTGTTTGTTGTGATGGATTCCTTACATTCCTCTTAATAGTTTCAGGCTTTAGATGCTGATGCCATCCTGCAACTTTGATATCTATTTGTATTTACACTGTTTACGACACTTGATGCGTCTTCTAGTGCATATTGCTGTATGTGGCGTAGCAATTGAGATTATGGATAATGTGGTAATTCATAAAGCAAATGCTTCTACTACTCTGTTGTTTTTTGGTCCAAATTCAACGTGTATTATGTTTTTTTAGTCGGTTTTAATGTCATAACTTACACCAAACTTTTGGAATGATAATTGAAGCCTCAAGAAGTGTGCCCCATTGACTAAGATTCATAGGTTTTTAGGGACTCCTATAAGAGGTTACAGGGCGTG

Coding sequence (CDS)

ATGACAGTGTTATTAGCAAAAGATCGATTAACCAAAACACCAAAAGGTTATGCGTTCATCCAATACACTAGCCAAGACGATGCGATGCTTGCGCTGGAAAATATGGATTGCAAGGTTAAACTTCATCTAGCTCTGTCATTGCCACATGAGAAATTTGATGGAAGGACGATCTATGTGGAACTTGCAAAACCTGGCAGTGGATCTTTTCGAGGATATCCGGTAACCTCTGGACCCCCGAAAGAGCGGCCTATACCTAAATTGGTGCCAGAAGAGGTAGCAGATTGCTGGTATTGA

Homology

[Close]

BLAST of CmoCh03G014830 vs. TrEMBL
Match: A0A0A0KL21_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_6G526430 PE=4 SV=1)

HSP 1 Score: 127.1 bits (318), Expect = 1.2e-26
Identity = 65/97 (67.01%), Postives = 70/97 (72.16%), Query Frame = 1


Query: 3   VLLAKDRLTKTPKGYAFIQYTSQDDAMLALENMDCKVKLHLALSLPHEKFDGRTIYVELA 62
           VLLAKDR TK PKGYAFIQYT QDDAMLALE MDCK+            FDGR IYVE+A
Sbjct: 74  VLLAKDRSTKRPKGYAFIQYTCQDDAMLALETMDCKI------------FDGRMIYVEIA 133

Query: 63  KPGSGSFRGYPVTSGPPKERPIPK--LVPEEVADCWY 98
            PGSGSF GYP  SGPPKERP  +  +  E+VADCWY
Sbjct: 134 TPGSGSFGGYPRASGPPKERPNERANVDQEDVADCWY 158

[Close]

BLAST of CmoCh03G014830 vs. TrEMBL
Match: A0A067GF61_CITSI (Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g031755mg PE=4 SV=1)

HSP 1 Score: 111.7 bits (278), Expect = 5.1e-22
Identity = 55/95 (57.89%), Postives = 66/95 (69.47%), Query Frame = 1


Query: 3   VLLAKDRLTKTPKGYAFIQYTSQDDAMLALENMDCKVKLHLALSLPHEKFDGRTIYVELA 62
           V L KD +TK  KGYAFIQYTSQDDA+LALE+MD            H+  DGR IYV++A
Sbjct: 73  VKLVKDEITKKSKGYAFIQYTSQDDALLALESMD------------HKNLDGRLIYVDIA 132

Query: 63  KPGSGSFRGYPVTSGPPKERPIPKLVPEEVADCWY 98
           KPG   F GYP TSGPPK++P+ +   +EVADCWY
Sbjct: 133 KPGKDRFGGYPRTSGPPKQQPLSE--QDEVADCWY 153

[Close]

BLAST of CmoCh03G014830 vs. TrEMBL
Match: V4TN06_9ROSI (Uncharacterized protein OS=Citrus clementina GN=CICLE_v10016768mg PE=4 SV=1)

HSP 1 Score: 111.7 bits (278), Expect = 5.1e-22
Identity = 55/95 (57.89%), Postives = 66/95 (69.47%), Query Frame = 1


Query: 3   VLLAKDRLTKTPKGYAFIQYTSQDDAMLALENMDCKVKLHLALSLPHEKFDGRTIYVELA 62
           V L KD +TK  KGYAFIQYTSQDDA+LALE+MD            H+  DGR IYV++A
Sbjct: 120 VKLVKDEITKKSKGYAFIQYTSQDDALLALESMD------------HKNLDGRLIYVDIA 179

Query: 63  KPGSGSFRGYPVTSGPPKERPIPKLVPEEVADCWY 98
           KPG   F GYP TSGPPK++P+ +   +EVADCWY
Sbjct: 180 KPGKDRFGGYPRTSGPPKQQPLSE--QDEVADCWY 200

[Close]

BLAST of CmoCh03G014830 vs. TrEMBL
Match: W9RS49_9ROSA (Glycine-rich RNA-binding protein 2 OS=Morus notabilis GN=L484_004913 PE=4 SV=1)

HSP 1 Score: 104.8 bits (260), Expect = 6.2e-20
Identity = 52/95 (54.74%), Postives = 66/95 (69.47%), Query Frame = 1


Query: 3   VLLAKDRLTKTPKGYAFIQYTSQDDAMLALENMDCKVKLHLALSLPHEKFDGRTIYVELA 62
           V L KD++T+  KG+AFIQ+TSQDDAMLA+ENMD            H+  DGR IYVE+A
Sbjct: 76  VKLIKDKMTRRSKGFAFIQFTSQDDAMLAIENMD------------HQNLDGRLIYVEIA 135

Query: 63  KPGSGSFRGYPVTSGPPKERPIPKLVPEEVADCWY 98
           KPG  +F GY  TSGPPK++   +++ EE ADCWY
Sbjct: 136 KPGKDAFGGYLRTSGPPKQQQHLQVL-EEAADCWY 157

[Close]

BLAST of CmoCh03G014830 vs. TrEMBL
Match: A0A0D2Q7H0_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_002G163800 PE=4 SV=1)

HSP 1 Score: 102.4 bits (254), Expect = 3.1e-19
Identity = 54/95 (56.84%), Postives = 62/95 (65.26%), Query Frame = 1


Query: 3   VLLAKDRLTKTPKGYAFIQYTSQDDAMLALENMDCKVKLHLALSLPHEKFDGRTIYVELA 62
           V +AKD  TK  KGYAFIQYTSQ+DA+LA+ENMD +V            FDGR IYVE+A
Sbjct: 73  VSIAKDDFTKRSKGYAFIQYTSQNDALLAVENMDQQV------------FDGRMIYVEIA 132

Query: 63  KPGSGSFRGYPVTSGPPKERPIPKLVPEEVADCWY 98
           KPG   FRGYP TSGPP  +        +VADCWY
Sbjct: 133 KPGKDRFRGYPKTSGPPTTKQ-QLQQSNDVADCWY 154

[Close]

BLAST of CmoCh03G014830 vs. TAIR10
Match: AT4G20030.1 (AT4G20030.1 RNA-binding (RRM/RBD/RNP motifs) family protein)

HSP 1 Score: 93.2 bits (230), Expect = 9.4e-20
Identity = 47/96 (48.96%), Postives = 61/96 (63.54%), Query Frame = 1


Query: 3   VLLAKDRLTKTPKGYAFIQYTSQDDAMLALENMDCKVKLHLALSLPHEKFDGRTIYVELA 62
           V L KD   K  KGYAFIQ+TSQDDA LA+E MD ++            ++GR IY+++A
Sbjct: 69  VKLIKDEAMKRSKGYAFIQFTSQDDAFLAIETMDRRM------------YNGRMIYIDIA 128

Query: 63  KPGSGSFRGYPVTSGPPKERPIP-KLVPEEVADCWY 98
           KPG   F+G P TSGPP++   P +   +EVADCWY
Sbjct: 129 KPGKRDFQGLPRTSGPPEKSDEPEEAANDEVADCWY 152

[Close]

BLAST of CmoCh03G014830 vs. TAIR10
Match: AT1G73530.1 (AT1G73530.1 RNA-binding (RRM/RBD/RNP motifs) family protein)

HSP 1 Score: 47.0 bits (110), Expect = 7.8e-06
Identity = 28/81 (34.57%), Postives = 43/81 (53.09%), Query Frame = 1


Query: 5   LAKDRLTKTPKGYAFIQYTSQDDAMLALENMDCKVKLHLALSLPHEKF-DGRTIYVELAK 64
           +  D++   PKG+AF++Y ++++AM A++ M             H KF DGR I+VE AK
Sbjct: 108 MVMDKVANRPKGFAFLRYETEEEAMKAIQGM-------------HGKFLDGRVIFVEEAK 167

Query: 65  PGSGSFRGYPVTSGP-PKERP 84
             S   R  P    P P+ +P
Sbjct: 168 TRSDMSRAKPRRDFPKPQSKP 175

[Close]

BLAST of CmoCh03G014830 vs. NCBI nr
Match: gi|659077977|ref|XP_008439484.1| (PREDICTED: cold-inducible RNA-binding protein B [Cucumis melo])

HSP 1 Score: 136.7 bits (343), Expect = 2.1e-29
Identity = 68/95 (71.58%), Postives = 73/95 (76.84%), Query Frame = 1


Query: 3   VLLAKDRLTKTPKGYAFIQYTSQDDAMLALENMDCKVKLHLALSLPHEKFDGRTIYVELA 62
           VLLAKDR TK PKGYAFIQYT QDDAMLALENMDCK+            FDGRTIYVE+A
Sbjct: 74  VLLAKDRSTKRPKGYAFIQYTCQDDAMLALENMDCKI------------FDGRTIYVEIA 133

Query: 63  KPGSGSFRGYPVTSGPPKERPIPKLVPEEVADCWY 98
           KPGSGSF GYP TSGPPKER  P +  E++ADCWY
Sbjct: 134 KPGSGSFGGYPRTSGPPKER--PNVEQEDIADCWY 154

[Close]

BLAST of CmoCh03G014830 vs. NCBI nr
Match: gi|449433509|ref|XP_004134540.1| (PREDICTED: glycine-rich RNA-binding protein 4, mitochondrial [Cucumis sativus])

HSP 1 Score: 127.1 bits (318), Expect = 1.7e-26
Identity = 65/97 (67.01%), Postives = 70/97 (72.16%), Query Frame = 1


Query: 3   VLLAKDRLTKTPKGYAFIQYTSQDDAMLALENMDCKVKLHLALSLPHEKFDGRTIYVELA 62
           VLLAKDR TK PKGYAFIQYT QDDAMLALE MDCK+            FDGR IYVE+A
Sbjct: 74  VLLAKDRSTKRPKGYAFIQYTCQDDAMLALETMDCKI------------FDGRMIYVEIA 133

Query: 63  KPGSGSFRGYPVTSGPPKERPIPK--LVPEEVADCWY 98
            PGSGSF GYP  SGPPKERP  +  +  E+VADCWY
Sbjct: 134 TPGSGSFGGYPRASGPPKERPNERANVDQEDVADCWY 158

[Close]

BLAST of CmoCh03G014830 vs. NCBI nr
Match: gi|567912639|ref|XP_006448633.1| (hypothetical protein CICLE_v10016768mg [Citrus clementina])

HSP 1 Score: 111.7 bits (278), Expect = 7.3e-22
Identity = 55/95 (57.89%), Postives = 66/95 (69.47%), Query Frame = 1


Query: 3   VLLAKDRLTKTPKGYAFIQYTSQDDAMLALENMDCKVKLHLALSLPHEKFDGRTIYVELA 62
           V L KD +TK  KGYAFIQYTSQDDA+LALE+MD            H+  DGR IYV++A
Sbjct: 120 VKLVKDEITKKSKGYAFIQYTSQDDALLALESMD------------HKNLDGRLIYVDIA 179

Query: 63  KPGSGSFRGYPVTSGPPKERPIPKLVPEEVADCWY 98
           KPG   F GYP TSGPPK++P+ +   +EVADCWY
Sbjct: 180 KPGKDRFGGYPRTSGPPKQQPLSE--QDEVADCWY 200

[Close]

BLAST of CmoCh03G014830 vs. NCBI nr
Match: gi|568828421|ref|XP_006468542.1| (PREDICTED: cold-inducible RNA-binding protein B [Citrus sinensis])

HSP 1 Score: 111.7 bits (278), Expect = 7.3e-22
Identity = 55/95 (57.89%), Postives = 66/95 (69.47%), Query Frame = 1


Query: 3   VLLAKDRLTKTPKGYAFIQYTSQDDAMLALENMDCKVKLHLALSLPHEKFDGRTIYVELA 62
           V L KD +TK  KGYAFIQYTSQDDA+LALE+MD            H+  DGR IYV++A
Sbjct: 73  VKLVKDEITKKSKGYAFIQYTSQDDALLALESMD------------HKNLDGRLIYVDIA 132

Query: 63  KPGSGSFRGYPVTSGPPKERPIPKLVPEEVADCWY 98
           KPG   F GYP TSGPPK++P+ +   +EVADCWY
Sbjct: 133 KPGKDRFGGYPRTSGPPKQQPLSE--QDEVADCWY 153

[Close]

BLAST of CmoCh03G014830 vs. NCBI nr
Match: gi|729294565|ref|XP_010536911.1| (PREDICTED: glycine-rich RNA-binding protein 4, mitochondrial [Tarenaya hassleriana])

HSP 1 Score: 105.5 bits (262), Expect = 5.2e-20
Identity = 52/95 (54.74%), Postives = 63/95 (66.32%), Query Frame = 1


Query: 3   VLLAKDRLTKTPKGYAFIQYTSQDDAMLALENMDCKVKLHLALSLPHEKFDGRTIYVELA 62
           V + KD  TK  KGYAFIQY  QDDAMLALE MD +V            ++GR IYV++A
Sbjct: 69  VKVVKDGSTKRSKGYAFIQYKCQDDAMLALETMDRQV------------YNGRVIYVDIA 128

Query: 63  KPGSGSFRGYPVTSGPPKERPIPKLVPEEVADCWY 98
           KPG   FRGYP TSGPP++R  P+   +E+ADCWY
Sbjct: 129 KPGKDDFRGYPRTSGPPEKRQPPEEASDELADCWY 151

The following BLAST results are available for this feature:

BLAST of CmoCh03G014830 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CmoCh03G014830 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0KL21_CUCSA	1.2e-26	67.01	Uncharacterized protein OS=Cucumis sativus GN=Csa_6G526430 PE=4 SV=1	[more]
A0A067GF61_CITSI	5.1e-22	57.89	Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g031755mg PE=4 SV=1	[more]
V4TN06_9ROSI	5.1e-22	57.89	Uncharacterized protein OS=Citrus clementina GN=CICLE_v10016768mg PE=4 SV=1	[more]
W9RS49_9ROSA	6.2e-20	54.74	Glycine-rich RNA-binding protein 2 OS=Morus notabilis GN=L484_004913 PE=4 SV=1	[more]
A0A0D2Q7H0_GOSRA	3.1e-19	56.84	Uncharacterized protein OS=Gossypium raimondii GN=B456_002G163800 PE=4 SV=1	[more]

BLAST of CmoCh03G014830 vs. TAIR10


Match Name	E-value	Identity	Description
AT4G20030.1	9.4e-20	48.96	RNA-binding (RRM/RBD/RNP motifs) family protein	[more]
AT1G73530.1	7.8e-06	34.57	RNA-binding (RRM/RBD/RNP motifs) family protein	[more]

BLAST of CmoCh03G014830 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|659077977\|ref\|XP_008439484.1\|	2.1e-29	71.58	PREDICTED: cold-inducible RNA-binding protein B [Cucumis melo]	[more]
gi\|449433509\|ref\|XP_004134540.1\|	1.7e-26	67.01	PREDICTED: glycine-rich RNA-binding protein 4, mitochondrial [Cucumis sativus]	[more]
gi\|567912639\|ref\|XP_006448633.1\|	7.3e-22	57.89	hypothetical protein CICLE_v10016768mg [Citrus clementina]	[more]
gi\|568828421\|ref\|XP_006468542.1\|	7.3e-22	57.89	PREDICTED: cold-inducible RNA-binding protein B [Citrus sinensis]	[more]
gi\|729294565\|ref\|XP_010536911.1\|	5.2e-20	54.74	PREDICTED: glycine-rich RNA-binding protein 4, mitochondrial [Tarenaya hassleria...	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR000504	RRM_dom
IPR012677	Nucleotide-bd_a/b_plait_sf

Vocabulary: **Molecular Function**
Term	Definition
GO:0003676	nucleic acid binding
GO:0000166	nucleotide binding

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0008150	biological_process
cellular_component	GO:0005575	cellular_component
cellular_component	GO:0005634	nucleus
molecular_function	GO:0003676	nucleic acid binding
molecular_function	GO:0000166	nucleotide binding
molecular_function	GO:0003723	RNA binding

Relationships

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


Feature Name	Unique Name	Type
CmoCh03G014830.1	CmoCh03G014830.1	mRNA

InterPro

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


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR000504	RNA recognition motif domain	PFAM	PF00076	RRM_1	coord: 3..37 score: 2.
IPR000504	RNA recognition motif domain	PROFILE	PS50102	RRM	coord: 1..64 score: 10
IPR012677	Nucleotide-binding alpha-beta plait domain	GENE3D	G3DSA:3.30.70.330		coord: 3..65 score: 2.6
IPR012677	Nucleotide-binding alpha-beta plait domain	unknown	SSF54928	RNA-binding domain, RBD	coord: 3..77 score: 1.36

Synteny

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


Gene	Orthologue	Organism	Block
CmoCh03G014830	Cucsa.048700	Cucumber (Gy14) v1	cgycmoB0040
CmoCh03G014830	CmaCh03G014830	Cucurbita maxima (Rimu)	cmacmoB653
CmoCh03G014830	Csa6G526430	Cucumber (Chinese Long) v2	cmocuB667
CmoCh03G014830	MELO3C007029	Melon (DHL92) v3.5.1	cmomeB606
CmoCh03G014830	ClCG01G025560	Watermelon (Charleston Gray)	cmowcgB573
CmoCh03G014830	CSPI06G37320	Wild cucumber (PI 183967)	cmocpiB678
CmoCh03G014830	Lsi01G000400	Bottle gourd (USVL1VR-Ls)	cmolsiB588
CmoCh03G014830	Cp4.1LG10g06790	Cucurbita pepo (Zucchini)	cmocpeB606
CmoCh03G014830	MELO3C007029.2	Melon (DHL92) v3.6.1	cmomedB695
CmoCh03G014830	CsaV3_6G052810	Cucumber (Chinese Long) v3	cmocucB0791
CmoCh03G014830	Cla97C01G025710	Watermelon (97103) v2	cmowmbB639
CmoCh03G014830	CsGy6G036680	Cucumber (Gy14) v2	cgybcmoB809
CmoCh03G014830	Carg26324	Silver-seed gourd	carcmoB1157

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CmoCh03G014830	Silver-seed gourd	carcmoB0995
CmoCh03G014830	Wax gourd	cmowgoB0782
CmoCh03G014830	Cucurbita moschata (Rifu)	cmocmoB459
CmoCh03G014830	Cucurbita maxima (Rimu)	cmacmoB861
CmoCh03G014830	Watermelon (97103) v1	cmowmB619
CmoCh03G014830	Cucurbita pepo (Zucchini)	cmocpeB618