CmoCh09G012580 (gene) Cucurbita moschata (Rifu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmoCh09G012580
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu))
Description	Retrotransposon protein, putative, Ty1-copia subclass
Location	Cmo_Chr09 : 10949319 .. 10949858 (-)

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.

ATGTCGTCACCACACAAAGTTGCAGGAGAAGATATGACATCAATGAAAAGCGGAAAGGAGAGGAGTGTAACGCTCCAGTACTCATTACTCACGAAGAGTAACTACACAACATGGACGATAAAGATGTGTGTCAACTTACAGGCACAAGGCATATGGGATGCCATTGAGCATGATGACATTGAGGAGCGTAAGGATAGGATGACTCTTACTGCTATCTACCAAGCAATTCTAGAGGACATCCTTCTCATGTTAGCAGAGAAGAACTCGACAAAGGCAGTGTGGGAGACATTGCAAACAATGCATGTGGGTGTGGAACATGTCAAGAAAGTAAAGGTGCAAACCTTGAGGAGTGAGTTCGAGGCTATACGCATGAAGGATGGTGAATCAATAGAGGACTTTACCATGAAGTTGATGATGATCATTAGTGGAATCCATTCATTAGGCAACAAAGTGGAGGAGATCTCCATCGTCAAGAAGTTCCATCGAGCTTGTCCCCCCGAGATTCATGCAGATTGTTACCTCCATCGAGCTGCTCATTGA

mRNA sequence

ATGTCGTCACCACACAAAGTTGCAGGAGAAGATATGACATCAATGAAAAGCGGAAAGGAGAGGAGTGTAACGCTCCAGTACTCATTACTCACGAAGAGTAACTACACAACATGGACGATAAAGATGTGTGTCAACTTACAGGCACAAGGCATATGGGATGCCATTGAGCATGATGACATTGAGGAGCGTAAGGATAGGATGACTCTTACTGCTATCTACCAAGCAATTCTAGAGGACATCCTTCTCATGTTAGCAGAGAAGAACTCGACAAAGGCAGTGTGGGAGACATTGCAAACAATGCATGTGGGTGTGGAACATGTCAAGAAAGTAAAGGTGCAAACCTTGAGGAGTGAGTTCGAGGCTATACGCATGAAGGATGGTGAATCAATAGAGGACTTTACCATGAAGTTGATGATGATCATTAGTGGAATCCATTCATTAGGCAACAAAGTGGAGGAGATCTCCATCGTCAAGAAGTTCCATCGAGCTTGTCCCCCCGAGATTCATGCAGATTGTTACCTCCATCGAGCTGCTCATTGA

Coding sequence (CDS)

ATGTCGTCACCACACAAAGTTGCAGGAGAAGATATGACATCAATGAAAAGCGGAAAGGAGAGGAGTGTAACGCTCCAGTACTCATTACTCACGAAGAGTAACTACACAACATGGACGATAAAGATGTGTGTCAACTTACAGGCACAAGGCATATGGGATGCCATTGAGCATGATGACATTGAGGAGCGTAAGGATAGGATGACTCTTACTGCTATCTACCAAGCAATTCTAGAGGACATCCTTCTCATGTTAGCAGAGAAGAACTCGACAAAGGCAGTGTGGGAGACATTGCAAACAATGCATGTGGGTGTGGAACATGTCAAGAAAGTAAAGGTGCAAACCTTGAGGAGTGAGTTCGAGGCTATACGCATGAAGGATGGTGAATCAATAGAGGACTTTACCATGAAGTTGATGATGATCATTAGTGGAATCCATTCATTAGGCAACAAAGTGGAGGAGATCTCCATCGTCAAGAAGTTCCATCGAGCTTGTCCCCCCGAGATTCATGCAGATTGTTACCTCCATCGAGCTGCTCATTGA

Homology

[Close]

BLAST of CmoCh09G012580 vs. TrEMBL
Match: A0A0A9DE89_ARUDO (Uncharacterized protein OS=Arundo donax PE=4 SV=1)

HSP 1 Score: 169.1 bits (427), Expect = 4.9e-39
Identity = 87/157 (55.41%), Postives = 114/157 (72.61%), Query Frame = 1


Query: 10  EDMTSMKSGKERSVTLQYSLLTKSNYTTWTIKMCVNLQAQGIWDAIEHD-DIEERKDRMT 69
           +D  +    KE SVTLQY LLT+SNYT+W I M   L+AQG+W+AI+ + DI+ RKD+M 
Sbjct: 3   KDGQASSMAKESSVTLQYPLLTRSNYTSWAITMKAYLKAQGVWEAIDLEKDIDMRKDQMA 62

Query: 70  LTAIYQAILEDILLMLAEKNSTKAVWETLQTMHVGVEHVKKVKVQTLRSEFEAIRMKDGE 129
           L AIYQ I E+ILL+L EK + K  W+ L+TMH+GV+ V + KVQTL+SE + +RMK+GE
Sbjct: 63  LAAIYQGIPEEILLLLVEKETAKEAWQMLKTMHMGVKRVMEAKVQTLKSELDVLRMKEGE 122

Query: 130 SIEDFTMKLMMIISGIHSLGNKVEEISIVKKFHRACP 166
           SI+DF MKL  IIS I +LG KV+E  +VKK  R  P
Sbjct: 123 SIDDFAMKLTSIISKIRALGEKVDEAYVVKKLLRVMP 159

[Close]

BLAST of CmoCh09G012580 vs. TrEMBL
Match: Q7G5Z8_ORYSJ (Putative retroelement OS=Oryza sativa subsp. japonica GN=OSJNAa0053D03.16 PE=4 SV=1)

HSP 1 Score: 158.3 bits (399), Expect = 8.7e-36
Identity = 76/147 (51.70%), Postives = 105/147 (71.43%), Query Frame = 1


Query: 19  KERSVTLQYSLLTKSNYTTWTIKMCVNLQAQGIWDAIEHDDIEERKDRMTLTAIYQAILE 78
           KE  VTL+Y +LT SNY  W++ M VN+QAQG+WDA+E  + E R DRM L AI QA+  
Sbjct: 41  KEAGVTLRYPVLTSSNYIEWSLLMKVNMQAQGVWDAVELGNTEHRIDRMALAAILQAVPS 100

Query: 79  DILLMLAEKNSTKAVWETLQTMHVGVEHVKKVKVQTLRSEFEAIRMKDGESIEDFTMKLM 138
           ++L  LA K++ K  WE ++TM +GVE V++ K Q+LR EFE IRMK+GES++DF M+L 
Sbjct: 101 EMLATLASKDTAKEAWEAVRTMRMGVERVREAKAQSLRKEFELIRMKEGESVDDFAMRLT 160

Query: 139 MIISGIHSLGNKVEEISIVKKFHRACP 166
            +++ IH+LG  +EE  +VKKF R  P
Sbjct: 161 GLVNNIHTLGAMMEEEMVVKKFLRVVP 187

[Close]

BLAST of CmoCh09G012580 vs. TrEMBL
Match: L0P1U6_9POAL (PH01B001E05.5 protein OS=Phyllostachys edulis GN=PH01B001E05.5 PE=4 SV=1)

HSP 1 Score: 157.5 bits (397), Expect = 1.5e-35
Identity = 79/170 (46.47%), Postives = 118/170 (69.41%), Query Frame = 1


Query: 2   SSPHKVAGE-DMTSMKSG-------KERSVTLQYSLLTKSNYTTWTIKMCVNLQAQGIWD 61
           SSP  V G+ D+  +  G       +E S++L Y +LT+SNYTTW +KM V +  QG+W+
Sbjct: 5   SSPRNVTGDGDVLKIGDGNVPKASAREGSISLPYPMLTRSNYTTWAMKMKVFMCTQGVWN 64

Query: 62  AIEHDDIEERKDRMTLTAIYQAILEDILLMLAEKNSTKAVWETLQTMHVGVEHVKKVKVQ 121
           AI  +++ ER+D+M L AI+ A+ +D+L++LAEK + K  W TL  MH+G + V++ +VQ
Sbjct: 65  AIVDEEVSERQDQMALAAIFLAVPKDMLMLLAEKETAKETWNTLNMMHLGADRVREARVQ 124

Query: 122 TLRSEFEAIRMKDGESIEDFTMKLMMIISGIHSLGNKVEEISIVKKFHRA 164
            L+SEF+ + M+D E I+DFTM LM I+S I  LG+K+EE+ IV+KF RA
Sbjct: 125 NLKSEFDNLHMRDTEQIDDFTMGLMTIVSKIRGLGDKMEEVYIVRKFLRA 174

[Close]

BLAST of CmoCh09G012580 vs. TrEMBL
Match: W5FLN4_WHEAT (Uncharacterized protein OS=Triticum aestivum PE=4 SV=1)

HSP 1 Score: 147.1 bits (370), Expect = 2.0e-32
Identity = 69/144 (47.92%), Postives = 101/144 (70.14%), Query Frame = 1


Query: 25  LQYSLLTKSNYTTWTIKMCVNLQAQGIWDAI---EHDDIEERKDRMTLTAIYQAILEDIL 84
           LQY +LT SNY  W IKM   ++AQG+WDA+   +H  +  R ++M L AIYQAI E  L
Sbjct: 545 LQYPILTDSNYAAWAIKMEAYMRAQGVWDAVVAKDHPKVSARNNQMALAAIYQAIPEGTL 604

Query: 85  LMLAEKNSTKAVWETLQTMHVGVEHVKKVKVQTLRSEFEAIRMKDGESIEDFTMKLMMII 144
            +L++KN+ K+ WE L+TMH+G + ++  K+QTL+ EFE +RMK+ ES +DF ++L  ++
Sbjct: 605 FLLSQKNTAKSAWEALKTMHIGDQRLRDAKLQTLKLEFEGLRMKETESTDDFAVRLTTVV 664

Query: 145 SGIHSLGNKVEEISIVKKFHRACP 166
           + IH+LG ++EE   VKKF RA P
Sbjct: 665 NKIHALGERIEEPYTVKKFLRAVP 688

[Close]

BLAST of CmoCh09G012580 vs. TrEMBL
Match: T1NBQ9_TRIUA (Uncharacterized protein OS=Triticum urartu PE=4 SV=1)

HSP 1 Score: 143.3 bits (360), Expect = 2.9e-31
Identity = 70/144 (48.61%), Postives = 101/144 (70.14%), Query Frame = 1


Query: 25  LQYSLLTKSNYTTWTIKMCVNLQAQGIWDAI---EHDDIEERKDRMTLTAIYQAILEDIL 84
           LQY +LT  NY  W IKM   L+AQG+WDA+   +H  +  RK++M L AIYQAI E  L
Sbjct: 540 LQYPMLT-DNYAAWAIKMEAYLRAQGVWDAVVAKDHPKVSARKNQMALAAIYQAIPEGTL 599

Query: 85  LMLAEKNSTKAVWETLQTMHVGVEHVKKVKVQTLRSEFEAIRMKDGESIEDFTMKLMMII 144
            +L++K + K+ WE L+TMH+G + ++  K+QTL+ EFEA+RMK+ ES++DF ++L  ++
Sbjct: 600 FLLSQKKTAKSAWEALKTMHIGDQRLRDAKLQTLKLEFEALRMKETESVDDFAVRLTTVV 659

Query: 145 SGIHSLGNKVEEISIVKKFHRACP 166
           + IH+LG  +EE   VKKF RA P
Sbjct: 660 NMIHALGEHIEEPYTVKKFLRAVP 682

[Close]

BLAST of CmoCh09G012580 vs. NCBI nr
Match: gi|19881713|gb|AAM01114.1|AC098682_18 (Putative retroelement [Oryza sativa Japonica Group])

HSP 1 Score: 158.3 bits (399), Expect = 1.3e-35
Identity = 76/147 (51.70%), Postives = 105/147 (71.43%), Query Frame = 1


Query: 19  KERSVTLQYSLLTKSNYTTWTIKMCVNLQAQGIWDAIEHDDIEERKDRMTLTAIYQAILE 78
           KE  VTL+Y +LT SNY  W++ M VN+QAQG+WDA+E  + E R DRM L AI QA+  
Sbjct: 41  KEAGVTLRYPVLTSSNYIEWSLLMKVNMQAQGVWDAVELGNTEHRIDRMALAAILQAVPS 100

Query: 79  DILLMLAEKNSTKAVWETLQTMHVGVEHVKKVKVQTLRSEFEAIRMKDGESIEDFTMKLM 138
           ++L  LA K++ K  WE ++TM +GVE V++ K Q+LR EFE IRMK+GES++DF M+L 
Sbjct: 101 EMLATLASKDTAKEAWEAVRTMRMGVERVREAKAQSLRKEFELIRMKEGESVDDFAMRLT 160

Query: 139 MIISGIHSLGNKVEEISIVKKFHRACP 166
            +++ IH+LG  +EE  +VKKF R  P
Sbjct: 161 GLVNNIHTLGAMMEEEMVVKKFLRVVP 187

[Close]

BLAST of CmoCh09G012580 vs. NCBI nr
Match: gi|440577427|emb|CCI55449.1| (PH01B001E05.5 [Phyllostachys edulis])

HSP 1 Score: 157.5 bits (397), Expect = 2.1e-35
Identity = 79/170 (46.47%), Postives = 118/170 (69.41%), Query Frame = 1


Query: 2   SSPHKVAGE-DMTSMKSG-------KERSVTLQYSLLTKSNYTTWTIKMCVNLQAQGIWD 61
           SSP  V G+ D+  +  G       +E S++L Y +LT+SNYTTW +KM V +  QG+W+
Sbjct: 5   SSPRNVTGDGDVLKIGDGNVPKASAREGSISLPYPMLTRSNYTTWAMKMKVFMCTQGVWN 64

Query: 62  AIEHDDIEERKDRMTLTAIYQAILEDILLMLAEKNSTKAVWETLQTMHVGVEHVKKVKVQ 121
           AI  +++ ER+D+M L AI+ A+ +D+L++LAEK + K  W TL  MH+G + V++ +VQ
Sbjct: 65  AIVDEEVSERQDQMALAAIFLAVPKDMLMLLAEKETAKETWNTLNMMHLGADRVREARVQ 124

Query: 122 TLRSEFEAIRMKDGESIEDFTMKLMMIISGIHSLGNKVEEISIVKKFHRA 164
            L+SEF+ + M+D E I+DFTM LM I+S I  LG+K+EE+ IV+KF RA
Sbjct: 125 NLKSEFDNLHMRDTEQIDDFTMGLMTIVSKIRGLGDKMEEVYIVRKFLRA 174

[Close]

BLAST of CmoCh09G012580 vs. NCBI nr
Match: gi|802634548|ref|XP_012078055.1| (PREDICTED: uncharacterized protein LOC105638802 [Jatropha curcas])

HSP 1 Score: 146.7 bits (369), Expect = 3.8e-32
Identity = 74/146 (50.68%), Postives = 101/146 (69.18%), Query Frame = 1


Query: 19  KERSVTLQYSLLTKSNYTTWTIKMCVNLQAQGIWDAIEHDD-IEERKDRMTLTAIYQAIL 78
           KE SVTL+Y +LTKSNY  W IKM V + AQG+WDA+E    +++R+D M L  IYQ I 
Sbjct: 31  KEGSVTLKYPMLTKSNYAAWAIKMEVFMMAQGVWDAVESPGPVDKRRDTMALATIYQGIG 90

Query: 79  EDILLMLAEKNSTKAVWETLQTMHVGVEHVKKVKVQTLRSEFEAIRMKDGESIEDFTMKL 138
           ED LL L  K + K  W  L+TM+ G + VK+V+ QTL  EFEA+RM D E+++DF+ KL
Sbjct: 91  EDTLLQLGAKKTAKEAWNMLKTMNQGADKVKEVRTQTLWREFEALRMSDSENVDDFSGKL 150

Query: 139 MMIISGIHSLGNKVEEISIVKKFHRA 164
            +I++ + SLGN VE+  +VKK  R+
Sbjct: 151 TIIVNKLRSLGNTVEDEKVVKKLLRS 176

[Close]

BLAST of CmoCh09G012580 vs. NCBI nr
Match: gi|110289190|gb|AAP54120.2| (retrotransposon protein, putative, Ty1-copia subclass [Oryza sativa Japonica Group])

HSP 1 Score: 142.9 bits (359), Expect = 5.4e-31
Identity = 71/157 (45.22%), Postives = 108/157 (68.79%), Query Frame = 1


Query: 9   GEDMTSMKSGKERSVTLQYSLLTKSNYTTWTIKMCVNLQAQGIWDAIEHDDIEERKDRMT 68
           G+ +   +  KE + ++ Y +LT++NYT W + M VNLQAQG+W AIE    E + DRM 
Sbjct: 338 GQQIIVQRVMKETAGSVVYPMLTRTNYTDWALVMRVNLQAQGLWSAIEPGYAEYQDDRMA 397

Query: 69  LTAIYQAILEDILLMLAEKNSTKAVWETLQTMHVGVEHVKKVKVQTLRSEFEAIRMKDGE 128
           L+AI +A+  ++L  LA K++ K  WE+++TM VGV  V++ K QTLR+EFE IRMK+ E
Sbjct: 398 LSAILRAVPPEMLPTLAVKDTAKEAWESVKTMRVGVARVREAKAQTLRNEFELIRMKESE 457

Query: 129 SIEDFTMKLMMIISGIHSLGNKVEEISIVKKFHRACP 166
           S++DF+M+L  I++ +  LG+ +EE  +V+KF R  P
Sbjct: 458 SVDDFSMRLNAIVNNLRMLGDPLEEEKVVQKFLRVVP 494

[Close]

BLAST of CmoCh09G012580 vs. NCBI nr
Match: gi|22213210|gb|AAM94550.1| (putative lectin receptor kinase [Oryza sativa Japonica Group])

HSP 1 Score: 142.9 bits (359), Expect = 5.4e-31
Identity = 71/157 (45.22%), Postives = 108/157 (68.79%), Query Frame = 1


Query: 9   GEDMTSMKSGKERSVTLQYSLLTKSNYTTWTIKMCVNLQAQGIWDAIEHDDIEERKDRMT 68
           G+ +   +  KE + ++ Y +LT++NYT W + M VNLQAQG+W AIE    E + DRM 
Sbjct: 323 GQQIIVQRVMKETAGSVVYPMLTRTNYTDWALVMRVNLQAQGLWSAIEPGYAEYQDDRMA 382

Query: 69  LTAIYQAILEDILLMLAEKNSTKAVWETLQTMHVGVEHVKKVKVQTLRSEFEAIRMKDGE 128
           L+AI +A+  ++L  LA K++ K  WE+++TM VGV  V++ K QTLR+EFE IRMK+ E
Sbjct: 383 LSAILRAVPPEMLPTLAVKDTAKEAWESVKTMRVGVARVREAKAQTLRNEFELIRMKESE 442

Query: 129 SIEDFTMKLMMIISGIHSLGNKVEEISIVKKFHRACP 166
           S++DF+M+L  I++ +  LG+ +EE  +V+KF R  P
Sbjct: 443 SVDDFSMRLNAIVNNLRMLGDPLEEEKVVQKFLRVVP 479

The following BLAST results are available for this feature:

BLAST of CmoCh09G012580 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CmoCh09G012580 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A9DE89_ARUDO	4.9e-39	55.41	Uncharacterized protein OS=Arundo donax PE=4 SV=1	[more]
Q7G5Z8_ORYSJ	8.7e-36	51.70	Putative retroelement OS=Oryza sativa subsp. japonica GN=OSJNAa0053D03.16 PE=4 S...	[more]
L0P1U6_9POAL	1.5e-35	46.47	PH01B001E05.5 protein OS=Phyllostachys edulis GN=PH01B001E05.5 PE=4 SV=1	[more]
W5FLN4_WHEAT	2.0e-32	47.92	Uncharacterized protein OS=Triticum aestivum PE=4 SV=1	[more]
T1NBQ9_TRIUA	2.9e-31	48.61	Uncharacterized protein OS=Triticum urartu PE=4 SV=1	[more]

BLAST of CmoCh09G012580 vs. TAIR10


Match Name	E-value	Identity	Description

BLAST of CmoCh09G012580 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|19881713\|gb\|AAM01114.1\|AC098682_18	1.3e-35	51.70	Putative retroelement [Oryza sativa Japonica Group]	[more]
gi\|440577427\|emb\|CCI55449.1\|	2.1e-35	46.47	PH01B001E05.5 [Phyllostachys edulis]	[more]
gi\|802634548\|ref\|XP_012078055.1\|	3.8e-32	50.68	PREDICTED: uncharacterized protein LOC105638802 [Jatropha curcas]	[more]
gi\|110289190\|gb\|AAP54120.2\|	5.4e-31	45.22	retrotransposon protein, putative, Ty1-copia subclass [Oryza sativa Japonica Gro...	[more]
gi\|22213210\|gb\|AAM94550.1\|	5.4e-31	45.22	putative lectin receptor kinase [Oryza sativa Japonica Group]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR025314	DUF4219

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0044260	cellular macromolecule metabolic process
biological_process	GO:0044238	primary metabolic process
cellular_component	GO:0031410	cytoplasmic vesicle
cellular_component	GO:0009536	plastid
molecular_function	GO:0003824	catalytic activity
molecular_function	GO:1901363	heterocyclic compound binding
molecular_function	GO:0097159	organic cyclic compound binding
molecular_function	GO:0046914	transition metal ion binding

Relationships

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


Feature Name	Unique Name	Type
CmoCh09G012580.1	CmoCh09G012580.1	mRNA

InterPro

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


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR025314	Domain of unknown function DUF4219	PFAM	PF13961	DUF4219	coord: 30..56 score: 8.7
None	No IPR available	PANTHER	PTHR11439	GAG-POL-RELATED RETROTRANSPOSON	coord: 19..165 score: 1.5
None	No IPR available	PANTHER	PTHR11439:SF173	SUBFAMILY NOT NAMED	coord: 19..165 score: 1.5
None	No IPR available	PFAM	PF14223	Retrotran_gag_2	coord: 62..166 score: 2.2

Synteny

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

None

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CmoCh09G012580	Wax gourd	cmowgoB0001
CmoCh09G012580	Cucurbita moschata (Rifu)	cmocmoB021
CmoCh09G012580	Cucumber (Gy14) v1	cgycmoB0658
CmoCh09G012580	Cucurbita maxima (Rimu)	cmacmoB028
CmoCh09G012580	Cucurbita maxima (Rimu)	cmacmoB029
CmoCh09G012580	Cucurbita maxima (Rimu)	cmacmoB438
CmoCh09G012580	Wild cucumber (PI 183967)	cmocpiB020
CmoCh09G012580	Cucumber (Chinese Long) v2	cmocuB020
CmoCh09G012580	Melon (DHL92) v3.5.1	cmomeB000
CmoCh09G012580	Watermelon (Charleston Gray)	cmowcgB027
CmoCh09G012580	Watermelon (97103) v1	cmowmB011
CmoCh09G012580	Cucurbita pepo (Zucchini)	cmocpeB025
CmoCh09G012580	Cucurbita pepo (Zucchini)	cmocpeB035
CmoCh09G012580	Bottle gourd (USVL1VR-Ls)	cmolsiB025
CmoCh09G012580	Cucumber (Gy14) v2	cgybcmoB551
CmoCh09G012580	Melon (DHL92) v3.6.1	cmomedB000
CmoCh09G012580	Silver-seed gourd	carcmoB0229
CmoCh09G012580	Silver-seed gourd	carcmoB0929
CmoCh09G012580	Cucumber (Chinese Long) v3	cmocucB0024
CmoCh09G012580	Watermelon (97103) v2	cmowmbB028