CmoCh11G012360 (gene) Cucurbita moschata (Rifu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmoCh11G012360
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu))
Description	Retrotransposon protein, putative, Ty1-copia subclass
Location	Cmo_Chr11 : 7683042 .. 7683549 (-)

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.

ATGCATGTCAACTTACAAGCACAAGTCGTGTGGGATGCCATTGAGCAATGTGACATTGAGGAGTGTAAGGACAGGATGGCTCTTGCCGCCATCTACCAAGTAGTCCGGAAGGACATTCTTCTCATGTTTGTAGAGAAGGACTCGACAAAGGCAGCATGGGAGACGTTGCAAACAATGCATGTGGGTGTGGAACATGTCAAGGAAGCAAAAATGCAGTCTTTGAAGAGTGAGTTCGAGGCTATCCGCATGAAGGGCGGTGAGTCAATTTGTCATAAAGTTAACGACGATTGTTAGCGACATCCATTCATTAGGCGACATGGTGGAGGAGATCTTCGTCATCAAGAAGTTCTTTCGAGCTGTTCCCCCCAGATTCATGCAAATTGGTACCTTCATCGAGCAGTTTGACGACCTCAAGAACATGTCAGTTGAGGAGGTTGTTGGTTATCTTAAGGTCCATGAGGAGAGACTTCGTGGTTATGAAGACAAAGAGAAGGAGAAACACCTCTGA

mRNA sequence

ATGCATGTCAACTTACAAGCACAAGTCGTGTGGGATGCCATTGAGCAATGTGACATTGAGGAGTGTAAGGACAGGATGGCTCTTGCCGCCATCTACCAAGTAGTCCGGAAGGACATTCTTCTCATGTTTGTAGAGAAGGACTCGACAAAGGCAGCATGGGAGACGTTGCAAACAATGCATGTGGGTGTGGAACATGTCAAGGAAGCAAAAATGCAGTCTTTGAAGAGCGACATGGTGGAGGAGATCTTCGTCATCAAGAAGTTCTTTCGAGCTGTTCCCCCCAGATTCATGCAAATTGGTACCTTCATCGAGCAGTTTGACGACCTCAAGAACATGTCAGTTGAGGAGGTTGTTGGTTATCTTAAGGTCCATGAGGAGAGACTTCGTGGTTATGAAGACAAAGAGAAGGAGAAACACCTCTGA

Coding sequence (CDS)

ATGCATGTCAACTTACAAGCACAAGTCGTGTGGGATGCCATTGAGCAATGTGACATTGAGGAGTGTAAGGACAGGATGGCTCTTGCCGCCATCTACCAAGTAGTCCGGAAGGACATTCTTCTCATGTTTGTAGAGAAGGACTCGACAAAGGCAGCATGGGAGACGTTGCAAACAATGCATGTGGGTGTGGAACATGTCAAGGAAGCAAAAATGCAGTCTTTGAAGAGCGACATGGTGGAGGAGATCTTCGTCATCAAGAAGTTCTTTCGAGCTGTTCCCCCCAGATTCATGCAAATTGGTACCTTCATCGAGCAGTTTGACGACCTCAAGAACATGTCAGTTGAGGAGGTTGTTGGTTATCTTAAGGTCCATGAGGAGAGACTTCGTGGTTATGAAGACAAAGAGAAGGAGAAACACCTCTGA

Homology

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BLAST of CmoCh11G012360 vs. TrEMBL
Match: A0A0A9DE89_ARUDO (Uncharacterized protein OS=Arundo donax PE=4 SV=1)

HSP 1 Score: 123.6 bits (309), Expect = 1.9e-25
Identity = 71/169 (42.01%), Postives = 105/169 (62.13%), Query Frame = 1


Query: 1   MHVNLQAQVVWDAIE-QCDIEECKDRMALAAIYQVVRKDILLMFVEKDSTKAAWETLQTM 60
           M   L+AQ VW+AI+ + DI+  KD+MALAAIYQ + ++ILL+ VEK++ K AW+ L+TM
Sbjct: 35  MKAYLKAQGVWEAIDLEKDIDMRKDQMALAAIYQGIPEEILLLLVEKETAKEAWQMLKTM 94

Query: 61  HVGVEHVKEAKMQSLKSDM-------------------------------VEEIFVIKKF 120
           H+GV+ V EAK+Q+LKS++                               V+E +V+KK 
Sbjct: 95  HMGVKRVMEAKVQTLKSELDVLRMKEGESIDDFAMKLTSIISKIRALGEKVDEAYVVKKL 154

Query: 121 FRAVPPRFMQIGTFIEQFDDLKNMSVEEVVGYLKVHEERLRGYEDKEKE 138
            R +P +F+Q+ + IEQF D K M++EEV+G LK +EER+  Y + E E
Sbjct: 155 LRVMPQKFLQVVSTIEQFGDFKTMTMEEVIGRLKAYEERICVYANNEGE 203

[Close]

BLAST of CmoCh11G012360 vs. TrEMBL
Match: T1NBQ9_TRIUA (Uncharacterized protein OS=Triticum urartu PE=4 SV=1)

HSP 1 Score: 114.0 bits (284), Expect = 1.5e-22
Identity = 67/174 (38.51%), Postives = 98/174 (56.32%), Query Frame = 1


Query: 1   MHVNLQAQVVWDAIEQCD---IEECKDRMALAAIYQVVRKDILLMFVEKDSTKAAWETLQ 60
           M   L+AQ VWDA+   D   +   K++MALAAIYQ + +  L +  +K + K+AWE L+
Sbjct: 556 MEAYLRAQGVWDAVVAKDHPKVSARKNQMALAAIYQAIPEGTLFLLSQKKTAKSAWEALK 615

Query: 61  TMHVGVEHVKEAKMQSLKSDM-------------------------------VEEIFVIK 120
           TMH+G + +++AK+Q+LK +                                +EE + +K
Sbjct: 616 TMHIGDQRLRDAKLQTLKLEFEALRMKETESVDDFAVRLTTVVNMIHALGEHIEEPYTVK 675

Query: 121 KFFRAVPPRFMQIGTFIEQFDDLKNMSVEEVVGYLKVHEERLRGYEDKEKEKHL 141
           KF RAVP +++QI + IEQF DL  M+++EV+G LKVHEERL      EKE  L
Sbjct: 676 KFLRAVPNKYLQIASTIEQFGDLNTMTLQEVIGRLKVHEERLGRLGATEKENEL 729

[Close]

BLAST of CmoCh11G012360 vs. TrEMBL
Match: L0P1U6_9POAL (PH01B001E05.5 protein OS=Phyllostachys edulis GN=PH01B001E05.5 PE=4 SV=1)

HSP 1 Score: 112.8 bits (281), Expect = 3.3e-22
Identity = 64/172 (37.21%), Postives = 99/172 (57.56%), Query Frame = 1


Query: 1   MHVNLQAQVVWDAIEQCDIEECKDRMALAAIYQVVRKDILLMFVEKDSTKAAWETLQTMH 60
           M V +  Q VW+AI   ++ E +D+MALAAI+  V KD+L++  EK++ K  W TL  MH
Sbjct: 53  MKVFMCTQGVWNAIVDEEVSERQDQMALAAIFLAVPKDMLMLLAEKETAKETWNTLNMMH 112

Query: 61  VGVEHVKEAKMQSLKS-------------------------------DMVEEIFVIKKFF 120
           +G + V+EA++Q+LKS                               D +EE+++++KF 
Sbjct: 113 LGADRVREARVQNLKSEFDNLHMRDTEQIDDFTMGLMTIVSKIRGLGDKMEEVYIVRKFL 172

Query: 121 RAVPPRFMQIGTFIEQFDDLKNMSVEEVVGYLKVHEERLRGYEDKE-KEKHL 141
           RAV  +F  I + IEQF D+KNMS++E++  LK HEE  R Y + +  ++HL
Sbjct: 173 RAVSRKFSPIASTIEQFGDIKNMSIKELIERLKTHEEGERRYSNSDGDDEHL 224

[Close]

BLAST of CmoCh11G012360 vs. TrEMBL
Match: W5FLN4_WHEAT (Uncharacterized protein OS=Triticum aestivum PE=4 SV=1)

HSP 1 Score: 112.5 bits (280), Expect = 4.3e-22
Identity = 65/174 (37.36%), Postives = 98/174 (56.32%), Query Frame = 1


Query: 1   MHVNLQAQVVWDAIEQCD---IEECKDRMALAAIYQVVRKDILLMFVEKDSTKAAWETLQ 60
           M   ++AQ VWDA+   D   +    ++MALAAIYQ + +  L +  +K++ K+AWE L+
Sbjct: 562 MEAYMRAQGVWDAVVAKDHPKVSARNNQMALAAIYQAIPEGTLFLLSQKNTAKSAWEALK 621

Query: 61  TMHVGVEHVKEAKMQSLK-------------------------------SDMVEEIFVIK 120
           TMH+G + +++AK+Q+LK                                + +EE + +K
Sbjct: 622 TMHIGDQRLRDAKLQTLKLEFEGLRMKETESTDDFAVRLTTVVNKIHALGERIEEPYTVK 681

Query: 121 KFFRAVPPRFMQIGTFIEQFDDLKNMSVEEVVGYLKVHEERLRGYEDKEKEKHL 141
           KF RAVP +++QI + IEQF DL  M+++EV+G LKVHEERL      EKE  L
Sbjct: 682 KFLRAVPNKYLQIASTIEQFGDLNTMTLQEVIGRLKVHEERLGRLGAAEKENEL 735

[Close]

BLAST of CmoCh11G012360 vs. TrEMBL
Match: W5G1G9_WHEAT (Uncharacterized protein OS=Triticum aestivum PE=4 SV=1)

HSP 1 Score: 112.1 bits (279), Expect = 5.6e-22
Identity = 65/174 (37.36%), Postives = 98/174 (56.32%), Query Frame = 1


Query: 1   MHVNLQAQVVWDAIEQCD---IEECKDRMALAAIYQVVRKDILLMFVEKDSTKAAWETLQ 60
           M   ++AQ VWDA+   D   +   K++MALA+IYQ + +  L +  +K + K+AWE L+
Sbjct: 562 MEAYMRAQGVWDAVVAKDHPKVSARKNQMALASIYQAIPEGTLFLLSQKKTAKSAWEALK 621

Query: 61  TMHVGVEHVKEAKMQSLK-------------------------------SDMVEEIFVIK 120
           TMH+G + +++AK+Q+LK                                + +EE + +K
Sbjct: 622 TMHIGDQRLRDAKLQTLKLEFEGLRMKETESVDDFAVRLTTVVNKIHALGEHIEEPYTVK 681

Query: 121 KFFRAVPPRFMQIGTFIEQFDDLKNMSVEEVVGYLKVHEERLRGYEDKEKEKHL 141
           KF RAVP +++QI + IEQF DL  M+++EV+G LKVHEERL      EKE  L
Sbjct: 682 KFLRAVPNKYLQIASTIEQFGDLNTMTLQEVIGRLKVHEERLGRLGATEKENEL 735

[Close]

BLAST of CmoCh11G012360 vs. NCBI nr
Match: gi|440577427|emb|CCI55449.1| (PH01B001E05.5 [Phyllostachys edulis])

HSP 1 Score: 112.8 bits (281), Expect = 4.7e-22
Identity = 64/172 (37.21%), Postives = 99/172 (57.56%), Query Frame = 1


Query: 1   MHVNLQAQVVWDAIEQCDIEECKDRMALAAIYQVVRKDILLMFVEKDSTKAAWETLQTMH 60
           M V +  Q VW+AI   ++ E +D+MALAAI+  V KD+L++  EK++ K  W TL  MH
Sbjct: 53  MKVFMCTQGVWNAIVDEEVSERQDQMALAAIFLAVPKDMLMLLAEKETAKETWNTLNMMH 112

Query: 61  VGVEHVKEAKMQSLKS-------------------------------DMVEEIFVIKKFF 120
           +G + V+EA++Q+LKS                               D +EE+++++KF 
Sbjct: 113 LGADRVREARVQNLKSEFDNLHMRDTEQIDDFTMGLMTIVSKIRGLGDKMEEVYIVRKFL 172

Query: 121 RAVPPRFMQIGTFIEQFDDLKNMSVEEVVGYLKVHEERLRGYEDKE-KEKHL 141
           RAV  +F  I + IEQF D+KNMS++E++  LK HEE  R Y + +  ++HL
Sbjct: 173 RAVSRKFSPIASTIEQFGDIKNMSIKELIERLKTHEEGERRYSNSDGDDEHL 224

[Close]

BLAST of CmoCh11G012360 vs. NCBI nr
Match: gi|729374102|ref|XP_010548841.1| (PREDICTED: uncharacterized protein LOC104820170 [Tarenaya hassleriana])

HSP 1 Score: 99.0 bits (245), Expect = 7.0e-18
Identity = 60/161 (37.27%), Postives = 86/161 (53.42%), Query Frame = 1


Query: 1   MHVNLQAQVVWDAIEQCD-IEECKDRMALAAIYQVVRKDILLMFVEKDSTKAAWETLQTM 60
           M V ++AQ VW A+E  + ++   D MALAAI+Q + +D +L    K + K AW  L+TM
Sbjct: 51  MRVYMKAQGVWGAVESDEPLDPRSDEMALAAIFQGISEDTILQLGAKKTAKEAWNALRTM 110

Query: 61  HVGVEHVKEAKMQSLK------------------------SDMVEEIFVIKKFFRAVPPR 120
           H G       +++SLK                         + V+E + +KK  RA  PR
Sbjct: 111 HRGRARSLRRELESLKMEDDDSVDDFTGKVTALVNQLRCLGEHVDESYAVKKILRAASPR 170

Query: 121 FMQIGTFIEQFDDLKNMSVEEVVGYLKVHEERLRGYEDKEK 137
           F+QI   IEQF DL  M++EEV G LK HEERLR ++ + +
Sbjct: 171 FIQIVAVIEQFGDLSKMTIEEVTGSLKAHEERLREWKARRE 211

[Close]

BLAST of CmoCh11G012360 vs. NCBI nr
Match: gi|90265100|emb|CAH67713.1| (H0512B01.8 [Oryza sativa Indica Group])

HSP 1 Score: 97.8 bits (242), Expect = 1.6e-17
Identity = 58/158 (36.71%), Postives = 84/158 (53.16%), Query Frame = 1


Query: 1   MHVNLQAQVVWDAIEQCDIEECKDRMALAAIYQVVRKDILLMFVEKDSTKAAWETLQTMH 60
           M V LQA+ +WDA+E  + +E +DRMA+ AI + V  +++ +   KDS K AW+ ++ MH
Sbjct: 71  MKVMLQARGLWDAVEHGECDEQEDRMAMEAILRAVPSEMISLLATKDSAKDAWDAIKVMH 130

Query: 61  VGVEHVKEAKMQSLK-------------------------------SDMVEEIFVIKKFF 120
           VGV+ V++AK Q L+                                + +EE  VI+KF 
Sbjct: 131 VGVDRVRKAKAQQLRREYESISFHDGESIDDFALRLTSLVSQLGTLGERIEEQNVIEKFL 190

Query: 121 RAVPPRFMQIGTFIEQFDDLKNMSVEEVVGYLKVHEER 128
           R VP RF QI   IE   DL  +++E+V   LKV EER
Sbjct: 191 RVVPERFSQIAVSIETLLDLSTLTIEDVTRRLKVAEER 228

[Close]

BLAST of CmoCh11G012360 vs. NCBI nr
Match: gi|90265095|emb|CAH67708.1| (H0512B01.3 [Oryza sativa Indica Group])

HSP 1 Score: 97.4 bits (241), Expect = 2.0e-17
Identity = 58/158 (36.71%), Postives = 84/158 (53.16%), Query Frame = 1


Query: 1   MHVNLQAQVVWDAIEQCDIEECKDRMALAAIYQVVRKDILLMFVEKDSTKAAWETLQTMH 60
           M V LQA+ +WDA+E  + +E +DRMA+ AI + V  +++ +   KDS K AW+ ++ M 
Sbjct: 71  MKVMLQARGLWDAVENGECDEQEDRMAMEAILRAVPSEMISLLATKDSAKDAWDAIKVMR 130

Query: 61  VGVEHVKEAKMQSLK-------------------------------SDMVEEIFVIKKFF 120
           VGV+ V++AK Q L+                                + +EE  VI+KF 
Sbjct: 131 VGVDRVRKAKAQQLRWEYESISFHDGESIDDFALRLTSLVSQLGTLGERIEEQNVIEKFL 190

Query: 121 RAVPPRFMQIGTFIEQFDDLKNMSVEEVVGYLKVHEER 128
           R VP RF QI   IE   DL  +++E+V G LKV EER
Sbjct: 191 RVVPERFSQIAMSIETLLDLSTLTIEDVTGCLKVAEER 228

[Close]

BLAST of CmoCh11G012360 vs. NCBI nr
Match: gi|1002292067|ref|XP_015650369.1| (PREDICTED: uncharacterized protein LOC107282066 [Oryza sativa Japonica Group])

HSP 1 Score: 96.7 bits (239), Expect = 3.5e-17
Identity = 58/158 (36.71%), Postives = 83/158 (52.53%), Query Frame = 1


Query: 1   MHVNLQAQVVWDAIEQCDIEECKDRMALAAIYQVVRKDILLMFVEKDSTKAAWETLQTMH 60
           M V LQA+ +WDA+E  + +E +DRMA+ AI + V  +++ +   KDS K AW+ ++ M 
Sbjct: 71  MKVMLQARGLWDAVEHGECDEQEDRMAMEAILRAVPSEMISLLATKDSAKDAWDAIKVMR 130

Query: 61  VGVEHVKEAKMQSLK-------------------------------SDMVEEIFVIKKFF 120
           VGV+ V++AK Q L                                 + +EE  VI+KF 
Sbjct: 131 VGVDRVRKAKAQQLHREYESISFHDGESIDDFALRLTSLVSQLGTLGERIEEQNVIEKFL 190

Query: 121 RAVPPRFMQIGTFIEQFDDLKNMSVEEVVGYLKVHEER 128
           R VP RF QI   IE   DL  +++E+V G LKV EER
Sbjct: 191 RVVPERFSQIAVSIETLLDLSTLTIEDVTGRLKVAEER 228

The following BLAST results are available for this feature:

BLAST of CmoCh11G012360 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CmoCh11G012360 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A9DE89_ARUDO	1.9e-25	42.01	Uncharacterized protein OS=Arundo donax PE=4 SV=1	[more]
T1NBQ9_TRIUA	1.5e-22	38.51	Uncharacterized protein OS=Triticum urartu PE=4 SV=1	[more]
L0P1U6_9POAL	3.3e-22	37.21	PH01B001E05.5 protein OS=Phyllostachys edulis GN=PH01B001E05.5 PE=4 SV=1	[more]
W5FLN4_WHEAT	4.3e-22	37.36	Uncharacterized protein OS=Triticum aestivum PE=4 SV=1	[more]
W5G1G9_WHEAT	5.6e-22	37.36	Uncharacterized protein OS=Triticum aestivum PE=4 SV=1	[more]

BLAST of CmoCh11G012360 vs. TAIR10


Match Name	E-value	Identity	Description

BLAST of CmoCh11G012360 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|440577427\|emb\|CCI55449.1\|	4.7e-22	37.21	PH01B001E05.5 [Phyllostachys edulis]	[more]
gi\|729374102\|ref\|XP_010548841.1\|	7.0e-18	37.27	PREDICTED: uncharacterized protein LOC104820170 [Tarenaya hassleriana]	[more]
gi\|90265100\|emb\|CAH67713.1\|	1.6e-17	36.71	H0512B01.8 [Oryza sativa Indica Group]	[more]
gi\|90265095\|emb\|CAH67708.1\|	2.0e-17	36.71	H0512B01.3 [Oryza sativa Indica Group]	[more]
gi\|1002292067\|ref\|XP_015650369.1\|	3.5e-17	36.71	PREDICTED: uncharacterized protein LOC107282066 [Oryza sativa Japonica Group]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition

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
molecular_function	GO:0005488	binding

Relationships

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


Feature Name	Unique Name	Type
CmoCh11G012360.1	CmoCh11G012360.1	mRNA

InterPro

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


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	unknown	Coil	Coil	coord: 131..140 scor
None	No IPR available	PANTHER	PTHR11439	GAG-POL-RELATED RETROTRANSPOSON	coord: 1..140 score: 2.2
None	No IPR available	PANTHER	PTHR11439:SF173	SUBFAMILY NOT NAMED	coord: 1..140 score: 2.2

Synteny

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


Gene	Orthologue	Organism	Block
CmoCh11G012360	CmaCh04G019530	Cucurbita maxima (Rimu)	cmacmoB679

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CmoCh11G012360	Silver-seed gourd	carcmoB0632
CmoCh11G012360	Wax gourd	cmowgoB0164
CmoCh11G012360	Cucurbita maxima (Rimu)	cmacmoB119
CmoCh11G012360	Cucurbita pepo (Zucchini)	cmocpeB127