CmoCh01G009260 (gene) Cucurbita moschata (Rifu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmoCh01G009260
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu))
Description	Retrotransposon protein, putative, Ty1-copia subclass
Location	Cmo_Chr01 : 5322864 .. 5323614 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDS

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

ATGAAGACGTTGCAAACAATGCATTTGGGTGTGGAATGGGTCAAGGAAGAAAAAGTACAGACCTTGAAGAGTGAGCTTGAGGCTATCCGTATGAAGGACGGTGAGTCAATAGACGACTTTTTCATGAAGTTGACCACGATCGTCATCGACATCCATTCCTTAGGCGATATGGTGGAGGTGATCTACGTCGTCAAGAAGTTCCTTCAAGTTGTTTCCCTGAGATTCATGCAGATTGTTATAATTCCATCGAGCAGTTCGACGACCTAAAGAACATATCGGTTGAGGAGGTTGTTGGTTGTCTTATGGTCCATGAGGAGAGACTTCATGACTACGATGATAAAAAGGAGAAGAGACATCTCTTACTCACACATGAGGAGTGGCTCACACGGACGAAAAGGAAAGATGCGGCTAATTCTTCCTTTTTAGGTACGAAGGGACATGACGGCCACAAAAAGGAGAGTAAAGTTTATGGGCGTGATCGCAAACGTGGTGGCAGAGGAGGTCGTGACAATACCTCACAGATCCATGACAATGTCAACCCCTAGAAGGATAAGAGTATGGTTAAGTGTTATGCTTGTATAAAATACATTATGCGGTAGAGTGCCGCAACAAGGAGTGCAATGAAGAGGCAAACCTCGCATTCACAGATGATGAAAAGCCCACATTGATGTTGGTCAAGAAAATACCCAATTTGTTGATGCTCAATGAAGAGAAGGTTATGACGAACCTCTTCGCAGATAGAGAAGAGTAA

mRNA sequence

ATGAAGACGTTGCAAACAATGCATTTGGGTGTGGAATGGGTCAAGGAAGAAAAAGTACAGACCTTGAAGAGTGAGCTTGAGGCTATCCGTATGAAGGACGGTGAGTCAATAGACGACTTTTTCATGAAGTTGACCACGATCGTCATCGACATCCATTCCTTAGGCGATATGGTGGAGTTCGACGACCTAAAGAACATATCGGTTGAGGAGGTTGTTGGTTGTCTTATGGTCCATGAGGAGAGACTTCATGACTACGATGATAAAAAGGAGAAGAGACATCTCTTACTCACACATGAGGAGTGGCTCACACGGACGAAAAGGAAAGATGCGGCTAATTCTTCCTTTTTAGGTACGAAGGGACATGACGGCCACAAAAAGGAGAGTAAAGTTTATGGGCGTGATCGCAAACGTGGTGGCAGAGGAGAGTGCCGCAACAAGGAGTGCAATGAAGAGGCAAACCTCGCATTCACAGATGATGAAAAGCCCACATTGATGTTGGTCAAGAAAATACCCAATTTGTTGATGCTCAATGAAGAGAAGGTTATGACGAACCTCTTCGCAGATAGAGAAGAGTAA

Coding sequence (CDS)

ATGAAGACGTTGCAAACAATGCATTTGGGTGTGGAATGGGTCAAGGAAGAAAAAGTACAGACCTTGAAGAGTGAGCTTGAGGCTATCCGTATGAAGGACGGTGAGTCAATAGACGACTTTTTCATGAAGTTGACCACGATCGTCATCGACATCCATTCCTTAGGCGATATGGTGGAGTTCGACGACCTAAAGAACATATCGGTTGAGGAGGTTGTTGGTTGTCTTATGGTCCATGAGGAGAGACTTCATGACTACGATGATAAAAAGGAGAAGAGACATCTCTTACTCACACATGAGGAGTGGCTCACACGGACGAAAAGGAAAGATGCGGCTAATTCTTCCTTTTTAGGTACGAAGGGACATGACGGCCACAAAAAGGAGAGTAAAGTTTATGGGCGTGATCGCAAACGTGGTGGCAGAGGAGAGTGCCGCAACAAGGAGTGCAATGAAGAGGCAAACCTCGCATTCACAGATGATGAAAAGCCCACATTGATGTTGGTCAAGAAAATACCCAATTTGTTGATGCTCAATGAAGAGAAGGTTATGACGAACCTCTTCGCAGATAGAGAAGAGTAA

Homology

[Close]

BLAST of CmoCh01G009260 vs. TrEMBL
Match: A0A0A9DE89_ARUDO (Uncharacterized protein OS=Arundo donax PE=4 SV=1)

HSP 1 Score: 99.0 bits (245), Expect = 6.7e-18
Identity = 70/191 (36.65%), Postives = 102/191 (53.40%), Query Frame = 1


Query: 4   LQTMHLGVEWVKEEKVQTLKSELEAIRMKDGESIDDFFMKLTTIVIDIHSLGDMV----- 63
           L+TMH+GV+ V E KVQTLKSEL+ +RMK+GESIDDF MKLT+I+  I +LG+ V     
Sbjct: 91  LKTMHMGVKRVMEAKVQTLKSELDVLRMKEGESIDDFAMKLTSIISKIRALGEKVDEAYV 150

Query: 64  --------------------EFDDLKNISVEEVVGCLMVHEERLHDYDDKKEKRHLLLTH 123
                               +F D K +++EEV+G L  +EER+  Y +  E  HLLLT 
Sbjct: 151 VKKLLRVMPQKFLQVVSTIEQFGDFKTMTMEEVIGRLKAYEERICVYAN-NEGEHLLLTR 210

Query: 124 EEWLTRTKRKDAANSSFLGTKGHDGHKKESKVYGRDRKRGGRGECRNKECNEEANLA-FT 169
            EW  +  +    N  F         K + K Y   +      EC  ++  E+A +   +
Sbjct: 211 AEWRAKEAKGGKRNRKF--------DKAKEKCYNCQKYGHYSYECHPEQKEEKAYIVDKS 270

[Close]

BLAST of CmoCh01G009260 vs. TrEMBL
Match: Q8LMZ0_ORYSJ (Putative lectin receptor kinase OS=Oryza sativa subsp. japonica GN=OSJNBa0013H08.4 PE=4 SV=1)

HSP 1 Score: 85.1 bits (209), Expect = 1.0e-13
Identity = 65/192 (33.85%), Postives = 98/192 (51.04%), Query Frame = 1


Query: 2   KTLQTMHLGVEWVKEEKVQTLKSELEAIRMKDGESIDDFFMKLTTIVIDIHSLGDMVEFD 61
           ++++TM +GV  V+E K QTL++E E IRMK+ ES+DDF M+L  IV ++  LGD +E +
Sbjct: 409 ESVKTMRVGVARVREAKAQTLRNEFELIRMKESESVDDFSMRLNAIVNNLRMLGDPLEEE 468

Query: 62  -------------------------DLKNISVEEVVGCLMVHEERLH--DYDDKKEKRHL 121
                                    DLK +S+EEV G L   EER    D D   +   L
Sbjct: 469 KVVQKFLRVVPSRFVQVAIAIEQLLDLKTLSIEEVTGRLRTVEERYRPGDNDGGVDGGRL 528

Query: 122 LLTHEEWLTRTKRKDAANSSFLGTKGHDGHKKESKVYGRDRKRGGRGECRNKECNEEANL 166
           LLT E+WL R + +     +F  +K    + +E   Y  ++K      C   + N +A+L
Sbjct: 529 LLTEEQWLERRRNRKKNGDTFDKSKVRCYNCQEYGHYSWEKK------CHETKKNHQAHL 588

[Close]

BLAST of CmoCh01G009260 vs. TrEMBL
Match: Q7G2S6_ORYSJ (Retrotransposon protein, putative, Ty1-copia subclass OS=Oryza sativa subsp. japonica GN=LOC_Os10g32150 PE=4 SV=1)

HSP 1 Score: 85.1 bits (209), Expect = 1.0e-13
Identity = 65/192 (33.85%), Postives = 98/192 (51.04%), Query Frame = 1


Query: 2   KTLQTMHLGVEWVKEEKVQTLKSELEAIRMKDGESIDDFFMKLTTIVIDIHSLGDMVEFD 61
           ++++TM +GV  V+E K QTL++E E IRMK+ ES+DDF M+L  IV ++  LGD +E +
Sbjct: 424 ESVKTMRVGVARVREAKAQTLRNEFELIRMKESESVDDFSMRLNAIVNNLRMLGDPLEEE 483

Query: 62  -------------------------DLKNISVEEVVGCLMVHEERLH--DYDDKKEKRHL 121
                                    DLK +S+EEV G L   EER    D D   +   L
Sbjct: 484 KVVQKFLRVVPSRFVQVAIAIEQLLDLKTLSIEEVTGRLRTVEERYRPGDNDGGVDGGRL 543

Query: 122 LLTHEEWLTRTKRKDAANSSFLGTKGHDGHKKESKVYGRDRKRGGRGECRNKECNEEANL 166
           LLT E+WL R + +     +F  +K    + +E   Y  ++K      C   + N +A+L
Sbjct: 544 LLTEEQWLERRRNRKKNGDTFDKSKVRCYNCQEYGHYSWEKK------CHETKKNHQAHL 603

[Close]

BLAST of CmoCh01G009260 vs. TrEMBL
Match: W5G1G9_WHEAT (Uncharacterized protein OS=Triticum aestivum PE=4 SV=1)

HSP 1 Score: 83.6 bits (205), Expect = 2.9e-13
Identity = 50/128 (39.06%), Postives = 74/128 (57.81%), Query Frame = 1


Query: 2   KTLQTMHLGVEWVKEEKVQTLKSELEAIRMKDGESIDDFFMKLTTIVIDIHSLGDMVE-- 61
           + L+TMH+G + +++ K+QTLK E E +RMK+ ES+DDF ++LTT+V  IH+LG+ +E  
Sbjct: 618 EALKTMHIGDQRLRDAKLQTLKLEFEGLRMKETESVDDFAVRLTTVVNKIHALGEHIEEP 677

Query: 62  -----------------------FDDLKNISVEEVVGCLMVHEERLHDYDDKKEKRHLLL 105
                                  F DL  ++++EV+G L VHEERL       EK + LL
Sbjct: 678 YTVKKFLRAVPNKYLQIASTIEQFGDLNTMTLQEVIGRLKVHEERLGRL-GATEKENELL 737

[Close]

BLAST of CmoCh01G009260 vs. TrEMBL
Match: M0V144_HORVD (Uncharacterized protein OS=Hordeum vulgare var. distichum PE=4 SV=1)

HSP 1 Score: 82.8 bits (203), Expect = 5.0e-13
Identity = 50/128 (39.06%), Postives = 74/128 (57.81%), Query Frame = 1


Query: 2   KTLQTMHLGVEWVKEEKVQTLKSELEAIRMKDGESIDDFFMKLTTIVIDIHSLGDMVE-- 61
           + L+TMH+G + +++ K+QTLK E E +RMK+ ES+DDF ++LTT+V  IH+LG+ +E  
Sbjct: 92  EALKTMHIGDQRLRDAKLQTLKLEFEGLRMKETESVDDFAVRLTTVVNKIHALGEHIEEP 151

Query: 62  -----------------------FDDLKNISVEEVVGCLMVHEERLHDYDDKKEKRHLLL 105
                                  F DL  ++++EV+G L VHEERL       EK + LL
Sbjct: 152 YAVKKFLRAVPNKYLQIASTIEQFGDLNAMTLQEVIGRLKVHEERLGRL-GAAEKENELL 211

[Close]

BLAST of CmoCh01G009260 vs. NCBI nr
Match: gi|22213210|gb|AAM94550.1| (putative lectin receptor kinase [Oryza sativa Japonica Group])

HSP 1 Score: 85.1 bits (209), Expect = 1.4e-13
Identity = 65/192 (33.85%), Postives = 98/192 (51.04%), Query Frame = 1


Query: 2   KTLQTMHLGVEWVKEEKVQTLKSELEAIRMKDGESIDDFFMKLTTIVIDIHSLGDMVEFD 61
           ++++TM +GV  V+E K QTL++E E IRMK+ ES+DDF M+L  IV ++  LGD +E +
Sbjct: 409 ESVKTMRVGVARVREAKAQTLRNEFELIRMKESESVDDFSMRLNAIVNNLRMLGDPLEEE 468

Query: 62  -------------------------DLKNISVEEVVGCLMVHEERLH--DYDDKKEKRHL 121
                                    DLK +S+EEV G L   EER    D D   +   L
Sbjct: 469 KVVQKFLRVVPSRFVQVAIAIEQLLDLKTLSIEEVTGRLRTVEERYRPGDNDGGVDGGRL 528

Query: 122 LLTHEEWLTRTKRKDAANSSFLGTKGHDGHKKESKVYGRDRKRGGRGECRNKECNEEANL 166
           LLT E+WL R + +     +F  +K    + +E   Y  ++K      C   + N +A+L
Sbjct: 529 LLTEEQWLERRRNRKKNGDTFDKSKVRCYNCQEYGHYSWEKK------CHETKKNHQAHL 588

[Close]

BLAST of CmoCh01G009260 vs. NCBI nr
Match: gi|110289190|gb|AAP54120.2| (retrotransposon protein, putative, Ty1-copia subclass [Oryza sativa Japonica Group])

HSP 1 Score: 85.1 bits (209), Expect = 1.4e-13
Identity = 65/192 (33.85%), Postives = 98/192 (51.04%), Query Frame = 1


Query: 2   KTLQTMHLGVEWVKEEKVQTLKSELEAIRMKDGESIDDFFMKLTTIVIDIHSLGDMVEFD 61
           ++++TM +GV  V+E K QTL++E E IRMK+ ES+DDF M+L  IV ++  LGD +E +
Sbjct: 424 ESVKTMRVGVARVREAKAQTLRNEFELIRMKESESVDDFSMRLNAIVNNLRMLGDPLEEE 483

Query: 62  -------------------------DLKNISVEEVVGCLMVHEERLH--DYDDKKEKRHL 121
                                    DLK +S+EEV G L   EER    D D   +   L
Sbjct: 484 KVVQKFLRVVPSRFVQVAIAIEQLLDLKTLSIEEVTGRLRTVEERYRPGDNDGGVDGGRL 543

Query: 122 LLTHEEWLTRTKRKDAANSSFLGTKGHDGHKKESKVYGRDRKRGGRGECRNKECNEEANL 166
           LLT E+WL R + +     +F  +K    + +E   Y  ++K      C   + N +A+L
Sbjct: 544 LLTEEQWLERRRNRKKNGDTFDKSKVRCYNCQEYGHYSWEKK------CHETKKNHQAHL 603

[Close]

BLAST of CmoCh01G009260 vs. NCBI nr
Match: gi|802634548|ref|XP_012078055.1| (PREDICTED: uncharacterized protein LOC105638802 [Jatropha curcas])

HSP 1 Score: 84.3 bits (207), Expect = 2.4e-13
Identity = 65/174 (37.36%), Postives = 86/174 (49.43%), Query Frame = 1


Query: 4   LQTMHLGVEWVKEEKVQTLKSELEAIRMKDGESIDDFFMKLTTIVIDIHSLGDMV----- 63
           L+TM+ G + VKE + QTL  E EA+RM D E++DDF  KLT IV  + SLG+ V     
Sbjct: 110 LKTMNQGADKVKEVRTQTLWREFEALRMSDSENVDDFSGKLTIIVNKLRSLGNTVEDEKV 169

Query: 64  --------------------EFDDLKNISVEEVVGCLMVHEERLHDYDDKKEKRHLLLTH 123
                               EF DL   SVE+V+G L  HEERL     K E+  LLLT 
Sbjct: 170 VKKLLRSVSSKFLQIVSTIEEFSDLSTKSVEDVIGSLKAHEERLLSCGGKSEET-LLLTR 229

Query: 124 EEWLTRTKRKDAANSSFLGTKGHDGHKKESKVYGRDRKRGGRGECRNKECNEEA 153
            EW  + + K   N +   T+G           GR R+RGGRG  + +  +E +
Sbjct: 230 AEWKAKEEAK-KNNKASADTRG-----------GRGRERGGRGRGKGRHSDESS 270

[Close]

BLAST of CmoCh01G009260 vs. NCBI nr
Match: gi|19881713|gb|AAM01114.1|AC098682_18 (Putative retroelement [Oryza sativa Japonica Group])

HSP 1 Score: 81.6 bits (200), Expect = 1.6e-12
Identity = 61/168 (36.31%), Postives = 86/168 (51.19%), Query Frame = 1


Query: 2   KTLQTMHLGVEWVKEEKVQTLKSELEAIRMKDGESIDDFFMKLTTIVIDIHSLGDMVEFD 61
           + ++TM +GVE V+E K Q+L+ E E IRMK+GES+DDF M+LT +V +IH+LG M+E +
Sbjct: 117 EAVRTMRMGVERVREAKAQSLRKEFELIRMKEGESVDDFAMRLTGLVNNIHTLGAMMEEE 176

Query: 62  -------------------------DLKNISVEEVVGCLMVHEERLH-DYDDKKEKRHLL 121
                                    DLK +SVEE+ G L   EER   D +  +    LL
Sbjct: 177 MVVKKFLRVVPSKYTQVAISIEQLIDLKTLSVEELTGRLKSVEERYEIDGNGSEAYGRLL 236

Query: 122 LTHEEWLTRTKRK------DAANSSFLGTKGHDGHKKESKVYGRDRKR 138
           LT E+W+ R K K      D A       +G+  +  E K  G   K+
Sbjct: 237 LTEEQWMERMKSKKKKDTFDKAKVRCYKCQGYGHYSWEEKCAGLKEKQ 284

[Close]

BLAST of CmoCh01G009260 vs. NCBI nr
Match: gi|440577427|emb|CCI55449.1| (PH01B001E05.5 [Phyllostachys edulis])

HSP 1 Score: 80.5 bits (197), Expect = 3.5e-12
Identity = 68/198 (34.34%), Postives = 94/198 (47.47%), Query Frame = 1


Query: 3   TLQTMHLGVEWVKEEKVQTLKSELEAIRMKDGESIDDFFMKLTTIVIDIHSLGDMVE--- 62
           TL  MHLG + V+E +VQ LKSE + + M+D E IDDF M L TIV  I  LGD +E   
Sbjct: 107 TLNMMHLGADRVREARVQNLKSEFDNLHMRDTEQIDDFTMGLMTIVSKIRGLGDKMEEVY 166

Query: 63  ----------------------FDDLKNISVEEVVGCLMVHEERLHDYDDKK-EKRHLLL 122
                                 F D+KN+S++E++  L  HEE    Y +   +  HLLL
Sbjct: 167 IVRKFLRAVSRKFSPIASTIEQFGDIKNMSIKELIERLKTHEEGERRYSNSDGDDEHLLL 226

Query: 123 THEEWLTRTKRKDAANSSFLGTKGHDG------HKKESKVYGRDRKRGGRGECR--NKEC 166
           T  EW  R+ + +    S  G+ G  G       K + + +  +  R    ECR  NK  
Sbjct: 227 TRTEWEARSSKHEGEGLSG-GSSGGSGCWYRRVDKAKVRCFNCNDYRHFASECRKPNKRE 286

The following BLAST results are available for this feature:

BLAST of CmoCh01G009260 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CmoCh01G009260 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A9DE89_ARUDO	6.7e-18	36.65	Uncharacterized protein OS=Arundo donax PE=4 SV=1	[more]
Q8LMZ0_ORYSJ	1.0e-13	33.85	Putative lectin receptor kinase OS=Oryza sativa subsp. japonica GN=OSJNBa0013H08...	[more]
Q7G2S6_ORYSJ	1.0e-13	33.85	Retrotransposon protein, putative, Ty1-copia subclass OS=Oryza sativa subsp. jap...	[more]
W5G1G9_WHEAT	2.9e-13	39.06	Uncharacterized protein OS=Triticum aestivum PE=4 SV=1	[more]
M0V144_HORVD	5.0e-13	39.06	Uncharacterized protein OS=Hordeum vulgare var. distichum PE=4 SV=1	[more]

BLAST of CmoCh01G009260 vs. TAIR10


Match Name	E-value	Identity	Description

BLAST of CmoCh01G009260 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|22213210\|gb\|AAM94550.1\|	1.4e-13	33.85	putative lectin receptor kinase [Oryza sativa Japonica Group]	[more]
gi\|110289190\|gb\|AAP54120.2\|	1.4e-13	33.85	retrotransposon protein, putative, Ty1-copia subclass [Oryza sativa Japonica Gro...	[more]
gi\|802634548\|ref\|XP_012078055.1\|	2.4e-13	37.36	PREDICTED: uncharacterized protein LOC105638802 [Jatropha curcas]	[more]
gi\|19881713\|gb\|AAM01114.1\|AC098682_18	1.6e-12	36.31	Putative retroelement [Oryza sativa Japonica Group]	[more]
gi\|440577427\|emb\|CCI55449.1\|	3.5e-12	34.34	PH01B001E05.5 [Phyllostachys edulis]	[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
CmoCh01G009260.1	CmoCh01G009260.1	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	PANTHER	PTHR11439	GAG-POL-RELATED RETROTRANSPOSON	coord: 4..107 score: 1.7E-23coord: 124..142 score: 1.7
None	No IPR available	PANTHER	PTHR11439:SF173	SUBFAMILY NOT NAMED	coord: 4..107 score: 1.7E-23coord: 124..142 score: 1.7
None	No IPR available	PFAM	PF14223	Retrotran_gag_2	coord: 2..62 score: 5.

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
CmoCh01G009260	Wild cucumber (PI 183967)	cmocpiB476
CmoCh01G009260	Cucumber (Chinese Long) v2	cmocuB472
CmoCh01G009260	Melon (DHL92) v3.5.1	cmomeB375
CmoCh01G009260	Watermelon (Charleston Gray)	cmowcgB429
CmoCh01G009260	Watermelon (97103) v1	cmowmB411
CmoCh01G009260	Cucurbita pepo (Zucchini)	cmocpeB448
CmoCh01G009260	Cucurbita pepo (Zucchini)	cmocpeB468
CmoCh01G009260	Bottle gourd (USVL1VR-Ls)	cmolsiB440
CmoCh01G009260	Cucumber (Gy14) v2	cgybcmoB611
CmoCh01G009260	Cucumber (Gy14) v2	cgybcmoB753
CmoCh01G009260	Melon (DHL92) v3.6.1	cmomedB431
CmoCh01G009260	Cucumber (Chinese Long) v3	cmocucB0565
CmoCh01G009260	Watermelon (97103) v2	cmowmbB481
CmoCh01G009260	Wax gourd	cmowgoB0553
CmoCh01G009260	Cucurbita moschata (Rifu)	cmocmoB024
CmoCh01G009260	Cucumber (Gy14) v1	cgycmoB0661
CmoCh01G009260	Cucurbita maxima (Rimu)	cmacmoB046
CmoCh01G009260	Cucurbita maxima (Rimu)	cmacmoB056
CmoCh01G009260	Cucurbita maxima (Rimu)	cmacmoB468