CmoCh03G014180 (gene) Cucurbita moschata (Rifu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmoCh03G014180
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu))
Description	Dead box ATP-dependent RNA helicase, putative
Location	Cmo_Chr03 : 10259069 .. 10260371 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSexon

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

ATGGCGGAGAAGCAGAAGCGCAAGAGCATCCCTGTTCTACCATGGATGCGAAGCCCTGTCGACGTCTCTTTATTCGAGGAATGCCTCTTTGAGATCCTCCCCTTGCTCGACCCCCCGCCAATTTCCTATTTATTCTGAATCATTTGAATGGTTAATGCCTTCCTATCATCGAGCTTTTCTTTTGTTTATGCATCAAATCGATTTCTGTATCCTTCTATTTGATATTTGTCATTTATTGCACTCCGTTGGAAACAAATGAATCCATGGTGGATATCTCATTGAAGATTTAACAAGCTGCAAAATGTGTTCATATTTAGAAGAGCATTGAGCTGTGATATATCTGTTAATTGTATCACATGTAATTGAAATTTTGGTTATGCACCATATGGCTCGGGATTTGCTGAATTGCATGAAATATGCTCACGGCTATTTTTCAATCCGGTTAAAGAGGTTCTTACTGCGGTTGCGCCTGCTGTGGGCTTATCTGTAGGTCTGCCTGTTGGTCAATCCTCCATAGCAGATGAAATTCTGAGCTCATCAAGGGACCTAAGCTCAAGGCCGGCATCTGTTATGATCCCGAAGATTTTTTGGTTGAGCTACCGAGTTCTGTGGACATATTGGTGGCAACACCTGGAAGATTGATGGACAATATTAACTTCACAAAGGAATTGCAAGTTTTACTTCTTGTAGCTATGGTTATACTGTTGAAGTTTTGTTCACCATTGTTATAATTAATCCTCATAACTTTTTTTACTGGCATGTTCTTTTTGGTTTACCTCAAAATTATAGTGCTGACTGCATATACTGTTTGGATTCATGCAGTGGTGTTGATGGGGGTTTTAAGGGTCAACCTTACCGAAGGCTTGCAAAGATGGTTCTCTCTGCAACGCCTAACAGGCTCCAGGCAAGCTTGCTCAGCTTGATTTGCATCACGCTCTATTCTTAACCACTGGGAAAAGAAGATATAAACTTCCGGAGTAATTAGAATCATACATGATGGTAAATTGGCCTGTCTCTTAATTAGTGTGCGAATAAATCATATCTTAGGTGTAAAAACCTCTCCCTAGTAAAGGTGTAGAAACCTCTCCCTAGTAGACACATTTTAAAAACTTGAGGGGAAGTCCGGAAGAGAAAACTCAAAAAAGACAATATCTGCTAATGATAGATTTGGGCGATTACAGTTTGTTTCTGGTTAAAAGAAGTTAGAGATGAATAATTGAGCAATATGTCGTTGTTCAACTTGCTTACTCTTAGATTCTTATGTTTCAGGTTAGGCGTTTCAAGAGATTGCTACACGGATTGA

mRNA sequence

ATGGCGGAGAAGCAGAAGCGCAAGAGCATCCCTGTTCTACCATGGATGCGAAGCCCTGTCGACGGACCTAAGCTCAAGGCCGGCATCTGTTATGATCCCGAAGATTTTTTGGTTGAGCTACCGAGTTCTGTGGACATATTGGTGGCAACACCTGGAAGATTGATGGACAATATTAACTTCACAAAGGAATTGCAAGTTTTACTTCTTGTAGCTATGGCTCCAGGCAAGCTTGCTCAGCTTGATTTGCATCACGCTCTATTCTTAACCACTGGGAAAAGAAGATATAAACTTCCGGAGTTAGGCGTTTCAAGAGATTGCTACACGGATTGA

Coding sequence (CDS)

ATGGCGGAGAAGCAGAAGCGCAAGAGCATCCCTGTTCTACCATGGATGCGAAGCCCTGTCGACGGACCTAAGCTCAAGGCCGGCATCTGTTATGATCCCGAAGATTTTTTGGTTGAGCTACCGAGTTCTGTGGACATATTGGTGGCAACACCTGGAAGATTGATGGACAATATTAACTTCACAAAGGAATTGCAAGTTTTACTTCTTGTAGCTATGGCTCCAGGCAAGCTTGCTCAGCTTGATTTGCATCACGCTCTATTCTTAACCACTGGGAAAAGAAGATATAAACTTCCGGAGTTAGGCGTTTCAAGAGATTGCTACACGGATTGA

Homology

[Close]

BLAST of CmoCh03G014180 vs. Swiss-Prot
Match: RH1_ARATH (DEAD-box ATP-dependent RNA helicase 1 OS=Arabidopsis thaliana GN=RH1 PE=2 SV=3)

HSP 1 Score: 64.3 bits (155), Expect = 9.4e-10
Identity = 30/40 (75.00%), Postives = 33/40 (82.50%), Query Frame = 1


Query: 23  PKLKAGICYDPEDFLVELPSSVDILVATPGRLMDNINFTK 63
           PKL AGICYDP+D    L S+VDILVATPGRLMD+IN TK
Sbjct: 155 PKLDAGICYDPDDLSQNLESAVDILVATPGRLMDHINNTK 194

[Close]

BLAST of CmoCh03G014180 vs. TrEMBL
Match: A0A0A0KNZ7_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_6G524090 PE=4 SV=1)

HSP 1 Score: 78.6 bits (192), Expect = 5.3e-12
Identity = 36/40 (90.00%), Postives = 39/40 (97.50%), Query Frame = 1


Query: 23  PKLKAGICYDPEDFLVELPSSVDILVATPGRLMDNINFTK 63
           PKL+AGICYDP+DFLVEL SSVDILVATPGRLMD+INFTK
Sbjct: 153 PKLEAGICYDPDDFLVELQSSVDILVATPGRLMDHINFTK 192

[Close]

BLAST of CmoCh03G014180 vs. TrEMBL
Match: W9R784_9ROSA (DEAD-box ATP-dependent RNA helicase 1 OS=Morus notabilis GN=L484_011439 PE=4 SV=1)

HSP 1 Score: 74.3 bits (181), Expect = 1.0e-10
Identity = 35/43 (81.40%), Postives = 38/43 (88.37%), Query Frame = 1


Query: 20  VDGPKLKAGICYDPEDFLVELPSSVDILVATPGRLMDNINFTK 63
           V  PKL+AGICYDPEDF + LPSSVDILVATPGRLMD+IN TK
Sbjct: 151 VKRPKLEAGICYDPEDFSLGLPSSVDILVATPGRLMDHINSTK 193

[Close]

BLAST of CmoCh03G014180 vs. TrEMBL
Match: D7TKB7_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VIT_10s0003g04000 PE=4 SV=1)

HSP 1 Score: 70.9 bits (172), Expect = 1.1e-09
Identity = 33/40 (82.50%), Postives = 36/40 (90.00%), Query Frame = 1


Query: 23  PKLKAGICYDPEDFLVELPSSVDILVATPGRLMDNINFTK 63
           PKL+AGICYDPED  +EL SSVDILVATPGRLMD+IN TK
Sbjct: 153 PKLEAGICYDPEDISLELQSSVDILVATPGRLMDHINTTK 192

[Close]

BLAST of CmoCh03G014180 vs. TrEMBL
Match: A0A061GER8_THECC (RNA helicase 1 OS=Theobroma cacao GN=TCM_029423 PE=4 SV=1)

HSP 1 Score: 70.5 bits (171), Expect = 1.5e-09
Identity = 33/40 (82.50%), Postives = 35/40 (87.50%), Query Frame = 1


Query: 23  PKLKAGICYDPEDFLVELPSSVDILVATPGRLMDNINFTK 63
           PKL+AGICYDPED   EL SSVDILVATPGRLMD+IN TK
Sbjct: 152 PKLEAGICYDPEDLAYELQSSVDILVATPGRLMDHINSTK 191

[Close]

BLAST of CmoCh03G014180 vs. TrEMBL
Match: A0A067KPD9_JATCU (Uncharacterized protein OS=Jatropha curcas GN=JCGZ_04650 PE=4 SV=1)

HSP 1 Score: 70.1 bits (170), Expect = 1.9e-09
Identity = 32/40 (80.00%), Postives = 37/40 (92.50%), Query Frame = 1


Query: 23  PKLKAGICYDPEDFLVELPSSVDILVATPGRLMDNINFTK 63
           PKL+AGICYDPEDF+ EL S+VDILVATPGRLMD+I+ TK
Sbjct: 160 PKLEAGICYDPEDFVQELESAVDILVATPGRLMDHISSTK 199

[Close]

BLAST of CmoCh03G014180 vs. TAIR10
Match: AT4G15850.1 (AT4G15850.1 RNA helicase 1)

HSP 1 Score: 64.3 bits (155), Expect = 5.3e-11
Identity = 30/40 (75.00%), Postives = 33/40 (82.50%), Query Frame = 1


Query: 23  PKLKAGICYDPEDFLVELPSSVDILVATPGRLMDNINFTK 63
           PKL AGICYDP+D    L S+VDILVATPGRLMD+IN TK
Sbjct: 155 PKLDAGICYDPDDLSQNLESAVDILVATPGRLMDHINNTK 194

[Close]

BLAST of CmoCh03G014180 vs. NCBI nr
Match: gi|449433605|ref|XP_004134588.1| (PREDICTED: DEAD-box ATP-dependent RNA helicase 1 [Cucumis sativus])

HSP 1 Score: 78.6 bits (192), Expect = 7.7e-12
Identity = 36/40 (90.00%), Postives = 39/40 (97.50%), Query Frame = 1


Query: 23  PKLKAGICYDPEDFLVELPSSVDILVATPGRLMDNINFTK 63
           PKL+AGICYDP+DFLVEL SSVDILVATPGRLMD+INFTK
Sbjct: 153 PKLEAGICYDPDDFLVELQSSVDILVATPGRLMDHINFTK 192

[Close]

BLAST of CmoCh03G014180 vs. NCBI nr
Match: gi|659078198|ref|XP_008439599.1| (PREDICTED: DEAD-box ATP-dependent RNA helicase 1 [Cucumis melo])

HSP 1 Score: 74.7 bits (182), Expect = 1.1e-10
Identity = 35/40 (87.50%), Postives = 37/40 (92.50%), Query Frame = 1


Query: 23  PKLKAGICYDPEDFLVELPSSVDILVATPGRLMDNINFTK 63
           PKL+AGICYDPED LV L SSVDILVATPGRLMD+INFTK
Sbjct: 153 PKLEAGICYDPEDVLVALQSSVDILVATPGRLMDHINFTK 192

[Close]

BLAST of CmoCh03G014180 vs. NCBI nr
Match: gi|1000940061|ref|XP_015583118.1| (PREDICTED: LOW QUALITY PROTEIN: DEAD-box ATP-dependent RNA helicase 1 [Ricinus communis])

HSP 1 Score: 74.3 bits (181), Expect = 1.4e-10
Identity = 51/116 (43.97%), Postives = 62/116 (53.45%), Query Frame = 1


Query: 23  PKLKAGICYDPEDFLV--ELPSSVDILVATPGRLMDNINFTKELQV-------------- 82
           PKL+AGICYD +D ++  EL +SVDILVATPGRLMD+I  TK   +              
Sbjct: 154 PKLEAGICYDRDDVILMQELQTSVDILVATPGRLMDHITNTKGFTLEHLCYLVSCXMCLT 213

Query: 83  LLLVAMAP-------GKLA----------------QLDLHHALFLTTGKRRYKLPE 100
           L+  A  P        +LA                QLDLHH LFLTTG+ RY+LPE
Sbjct: 214 LMYFAFLPIIIGKSYPRLAKMVLSATLTQDPSKLVQLDLHHPLFLTTGQSRYQLPE 269

[Close]

BLAST of CmoCh03G014180 vs. NCBI nr
Match: gi|703076935|ref|XP_010090461.1| (DEAD-box ATP-dependent RNA helicase 1 [Morus notabilis])

HSP 1 Score: 74.3 bits (181), Expect = 1.4e-10
Identity = 35/43 (81.40%), Postives = 38/43 (88.37%), Query Frame = 1


Query: 20  VDGPKLKAGICYDPEDFLVELPSSVDILVATPGRLMDNINFTK 63
           V  PKL+AGICYDPEDF + LPSSVDILVATPGRLMD+IN TK
Sbjct: 151 VKRPKLEAGICYDPEDFSLGLPSSVDILVATPGRLMDHINSTK 193

[Close]

BLAST of CmoCh03G014180 vs. NCBI nr
Match: gi|225443938|ref|XP_002279094.1| (PREDICTED: DEAD-box ATP-dependent RNA helicase 1 [Vitis vinifera])

HSP 1 Score: 70.9 bits (172), Expect = 1.6e-09
Identity = 33/40 (82.50%), Postives = 36/40 (90.00%), Query Frame = 1


Query: 23  PKLKAGICYDPEDFLVELPSSVDILVATPGRLMDNINFTK 63
           PKL+AGICYDPED  +EL SSVDILVATPGRLMD+IN TK
Sbjct: 153 PKLEAGICYDPEDISLELQSSVDILVATPGRLMDHINTTK 192

The following BLAST results are available for this feature:

BLAST of CmoCh03G014180 vs. Swiss-Prot


Match Name	E-value	Identity	Description
RH1_ARATH	9.4e-10	75.00	DEAD-box ATP-dependent RNA helicase 1 OS=Arabidopsis thaliana GN=RH1 PE=2 SV=3	[more]

BLAST of CmoCh03G014180 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0KNZ7_CUCSA	5.3e-12	90.00	Uncharacterized protein OS=Cucumis sativus GN=Csa_6G524090 PE=4 SV=1	[more]
W9R784_9ROSA	1.0e-10	81.40	DEAD-box ATP-dependent RNA helicase 1 OS=Morus notabilis GN=L484_011439 PE=4 SV=...	[more]
D7TKB7_VITVI	1.1e-09	82.50	Putative uncharacterized protein OS=Vitis vinifera GN=VIT_10s0003g04000 PE=4 SV=...	[more]
A0A061GER8_THECC	1.5e-09	82.50	RNA helicase 1 OS=Theobroma cacao GN=TCM_029423 PE=4 SV=1	[more]
A0A067KPD9_JATCU	1.9e-09	80.00	Uncharacterized protein OS=Jatropha curcas GN=JCGZ_04650 PE=4 SV=1	[more]

BLAST of CmoCh03G014180 vs. TAIR10


Match Name	E-value	Identity	Description
AT4G15850.1	5.3e-11	75.00	RNA helicase 1	[more]

BLAST of CmoCh03G014180 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|449433605\|ref\|XP_004134588.1\|	7.7e-12	90.00	PREDICTED: DEAD-box ATP-dependent RNA helicase 1 [Cucumis sativus]	[more]
gi\|659078198\|ref\|XP_008439599.1\|	1.1e-10	87.50	PREDICTED: DEAD-box ATP-dependent RNA helicase 1 [Cucumis melo]	[more]
gi\|1000940061\|ref\|XP_015583118.1\|	1.4e-10	43.97	PREDICTED: LOW QUALITY PROTEIN: DEAD-box ATP-dependent RNA helicase 1 [Ricinus c...	[more]
gi\|703076935\|ref\|XP_010090461.1\|	1.4e-10	81.40	DEAD-box ATP-dependent RNA helicase 1 [Morus notabilis]	[more]
gi\|225443938\|ref\|XP_002279094.1\|	1.6e-09	82.50	PREDICTED: DEAD-box ATP-dependent RNA helicase 1 [Vitis vinifera]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR027417	P-loop_NTPase

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0009560	embryo sac egg cell differentiation
biological_process	GO:0006406	mRNA export from nucleus
biological_process	GO:0009640	photomorphogenesis
biological_process	GO:0000338	protein deneddylation
biological_process	GO:0006606	protein import into nucleus
biological_process	GO:0006626	protein targeting to mitochondrion
biological_process	GO:0008152	metabolic process
biological_process	GO:0008150	biological_process
cellular_component	GO:0005622	intracellular
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0005524	ATP binding
molecular_function	GO:0017151	DEAD/H-box RNA helicase binding
molecular_function	GO:0004386	helicase activity
molecular_function	GO:0003676	nucleic acid binding

Relationships

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


Feature Name	Unique Name	Type
CmoCh03G014180.1	CmoCh03G014180.1	mRNA

InterPro

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


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR027417	P-loop containing nucleoside triphosphate hydrolase	GENE3D	G3DSA:3.40.50.300		coord: 23..65 score: 3.

Synteny

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


Gene	Orthologue	Organism	Block
CmoCh03G014180	CmaCh03G014220	Cucurbita maxima (Rimu)	cmacmoB653
CmoCh03G014180	Cp4.1LG19g05920	Cucurbita pepo (Zucchini)	cmocpeB618
CmoCh03G014180	MELO3C007111.2	Melon (DHL92) v3.6.1	cmomedB695
CmoCh03G014180	CsaV3_6G051950	Cucumber (Chinese Long) v3	cmocucB0791
CmoCh03G014180	Bhi03G000101	Wax gourd	cmowgoB0782
CmoCh03G014180	Carg14991	Silver-seed gourd	carcmoB0995

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


Gene	Paralogue	Organism	Block
CmoCh03G014180	CmoCh07G000870	Cucurbita moschata (Rifu)	cmocmoB459

The following block(s) are covering this gene:


Gene	Organism	Block
CmoCh03G014180	Watermelon (97103) v2	cmowmbB639
CmoCh03G014180	Watermelon (97103) v2	cmowmbB655
CmoCh03G014180	Wax gourd	cmowgoB0804
CmoCh03G014180	Cucurbita moschata (Rifu)	cmocmoB183
CmoCh03G014180	Cucurbita moschata (Rifu)	cmocmoB334
CmoCh03G014180	Cucumber (Gy14) v1	cgycmoB0040
CmoCh03G014180	Cucurbita maxima (Rimu)	cmacmoB236
CmoCh03G014180	Cucurbita maxima (Rimu)	cmacmoB417
CmoCh03G014180	Cucurbita maxima (Rimu)	cmacmoB861
CmoCh03G014180	Wild cucumber (PI 183967)	cmocpiB678
CmoCh03G014180	Cucumber (Chinese Long) v2	cmocuB667
CmoCh03G014180	Melon (DHL92) v3.5.1	cmomeB582
CmoCh03G014180	Melon (DHL92) v3.5.1	cmomeB606
CmoCh03G014180	Watermelon (Charleston Gray)	cmowcgB573
CmoCh03G014180	Watermelon (Charleston Gray)	cmowcgB582
CmoCh03G014180	Watermelon (97103) v1	cmowmB613
CmoCh03G014180	Watermelon (97103) v1	cmowmB619
CmoCh03G014180	Cucurbita pepo (Zucchini)	cmocpeB603
CmoCh03G014180	Cucurbita pepo (Zucchini)	cmocpeB606
CmoCh03G014180	Cucurbita pepo (Zucchini)	cmocpeB628
CmoCh03G014180	Bottle gourd (USVL1VR-Ls)	cmolsiB588
CmoCh03G014180	Bottle gourd (USVL1VR-Ls)	cmolsiB593
CmoCh03G014180	Cucumber (Gy14) v2	cgybcmoB809
CmoCh03G014180	Melon (DHL92) v3.6.1	cmomedB668
CmoCh03G014180	Silver-seed gourd	carcmoB0408
CmoCh03G014180	Silver-seed gourd	carcmoB0571