CmoCh11G011470 (gene) Cucurbita moschata (Rifu)

Overview
NameCmoCh11G011470
Typegene
OrganismCucurbita moschata (Cucurbita moschata (Rifu))
Description(Retrovirus-related Pol polyprotein from transposon TNT 1-94) (3.1.13.-)
LocationCmo_Chr11 : 6516776 .. 6517591 (+)
Genome Viewer
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.
ATGGGAGGTGGTCGAAGAAGGTTTCGAAGAACCATAAGATACCACGGGTTATACGGCGACATAAAACAAGGCGTTAAAAGAGGTGCGATCAAAGGATAAGACGACACTATACATGTTGTCCGAGCTGTTGCTGAGTCGAGCTTTGAGAAGATTGTTAGTGGAACTACTTCAAAAGAAGCGTGGGAAACTTTAGGAAAAGTATTCAAAGGAACCGACCGAGTCAAGCAAGTGCGTCTCCAAACTCTTCATGGCGAGTTGGAGAGCATGAAGATGAAGGAGTTAGAAAGTGTATCCGACTACATCACACGTGTACAGACCGTGGTAAACCAACTCAACCGAAACGAAGAAATGTTACCCGAGACGCGGATTGTGGAGAAGATTTTGCGGTCATTAACCAATAACTTTGAGAATGTTGTATGTACGATAGAAGAGTCAAAGGACCTAGCGACGTTCACGGTCGATGAGCTCGCCGGTTCTCACGAGGCACACGAGCAACGTAAGAAGAAGGAGGAAACACTTGATCAAGCAGTTCAAACCAAGCATCAATCAAAGATGAAAAGGTACTCTACTCTCAAAATTTTCAAGGTAGAGGTTGTAGTCGTGGAAGCCGCGGAAATGGTCGTGGAAGCTGCGGAAATGGTCAAGGTGGTCAAGGCAGCAGTAATGAAGGATACTATAAGGAGAAGAGATAGTCGAGCCAAGCAAATTGGCGTGGAAGAGGACGCAGTCAAAGAAGATGGTCACTATGCGAATGATTGTAACTCCGACAAATGTTACAATTGTGGCAGAGTGAGACATTTCGCAAGCGATTATTGA

mRNA sequence

ATGGGAGGTGGTCGAAGAAGGTTTCGAAGAACCATAAGATACCACGGGTTATACGGCGACATAAAACAAGGCGTTAAAAGAGGAAAAGTATTCAAAGGAACCGACCGAGTCAAGCAAGTGCGTCTCCAAACTCTTCATGGCGAGTTGGAGAGCATGAAGATGAAGGAGTTAGAAAGTGTATCCGACTACATCACACGTGTACAGACCGTGGTAAACCAACTCAACCGAAACGAAGAAATGTTACCCGAGACGCGGATTGTGGAGAAGATTTTGCGGTCATTAACCAATAACTTTGAGAATGTTGTATGTACGATAGAAGAGTCAAAGGACCTAGCGACGTTCACGGTCGATGAGCTCGCCGGTTCTCACGAGGCACACGAGCAACGTAAGAAGAAGGAGGAAACACTTGATCAAGCAGTTCAAACCAAGCATCAATCAAAGATGAAAAGGTACTCTACTCTCAAAATTTTCAAGGTAGAGGTTGTAGTCGTGGAAGCCGCGGAAATGGTCGTGGAAGCTGCGGAAATGGTCAAGGTGGTCAAGGCAGCAGTAATGAAGGATACTATAAGGAGAAGAGATAGTCGAGCCAAGCAAATTGGCGTGGAAGAGGACGCAGTCAAAGAAGATGGTCACTATGCGAATGATTGTAACTCCGACAAATGTTACAATTGTGGCAGAGTGAGACATTTCGCAAGCGATTATTGA

Coding sequence (CDS)

ATGGGAGGTGGTCGAAGAAGGTTTCGAAGAACCATAAGATACCACGGGTTATACGGCGACATAAAACAAGGCGTTAAAAGAGGAAAAGTATTCAAAGGAACCGACCGAGTCAAGCAAGTGCGTCTCCAAACTCTTCATGGCGAGTTGGAGAGCATGAAGATGAAGGAGTTAGAAAGTGTATCCGACTACATCACACGTGTACAGACCGTGGTAAACCAACTCAACCGAAACGAAGAAATGTTACCCGAGACGCGGATTGTGGAGAAGATTTTGCGGTCATTAACCAATAACTTTGAGAATGTTGTATGTACGATAGAAGAGTCAAAGGACCTAGCGACGTTCACGGTCGATGAGCTCGCCGGTTCTCACGAGGCACACGAGCAACGTAAGAAGAAGGAGGAAACACTTGATCAAGCAGTTCAAACCAAGCATCAATCAAAGATGAAAAGGTACTCTACTCTCAAAATTTTCAAGGTAGAGGTTGTAGTCGTGGAAGCCGCGGAAATGGTCGTGGAAGCTGCGGAAATGGTCAAGGTGGTCAAGGCAGCAGTAATGAAGGATACTATAAGGAGAAGAGATAGTCGAGCCAAGCAAATTGGCGTGGAAGAGGACGCAGTCAAAGAAGATGGTCACTATGCGAATGATTGTAACTCCGACAAATGTTACAATTGTGGCAGAGTGAGACATTTCGCAAGCGATTATTGA
Homology
[Close]
BLAST of CmoCh11G011470 vs. TrEMBL
Match: A0A059QBK0_PHAVU (Polyprotein OS=Phaseolus vulgaris PE=4 SV=1)

HSP 1 Score: 170.2 bits (430), Expect = 2.9e-39
Identity = 95/121 (78.51%), Postives = 104/121 (85.95%), Query Frame = 1 

Query: 29  KVFKGTDRVKQVRLQTLHGELESMKMKELESVSDYITRVQTVVNQLNRNEEMLPETRIVE 88
           KVFKG DRVKQVRLQTL GELE+MKM E ESVSDYITRVQ VVNQLNRN E L + R+VE
Sbjct: 101 KVFKGADRVKQVRLQTLRGELENMKMMESESVSDYITRVQAVVNQLNRNGETLTDARVVE 160

Query: 89  KILRSLTNNFENVVCTIEESKDLATFTVDELAGSHEAHEQR--KKKEETLDQAVQTKHQS 148
           KILR+LT+NFE++VC IEESKDLAT TVDELAGS EAHEQR  KKKEETL+QA+QTK   
Sbjct: 161 KILRTLTDNFESIVCAIEESKDLATLTVDELAGSLEAHEQRKKKKKEETLEQALQTKASI 220

[Close]
BLAST of CmoCh11G011470 vs. TrEMBL
Match: A0A151TA96_CAJCA (Gag polyprotein OS=Cajanus cajan GN=KK1_018540 PE=4 SV=1)

HSP 1 Score: 154.1 bits (388), Expect = 2.1e-34
Identity = 103/209 (49.28%), Postives = 131/209 (62.68%), Query Frame = 1 

Query: 29  KVFKGTDRVKQVRLQTLHGELESMKMKELESVSDYITRVQTVVNQLNRNEEMLPETRIVE 88
           K  KG +RVKQVRLQTL GELE+M+MKE E VS++ITRV+TV N+LNRN E LP +R+VE
Sbjct: 101 KAKKGDERVKQVRLQTLRGELENMRMKEFEGVSEFITRVETVANKLNRNGENLPSSRVVE 160

Query: 89  KILRSLTNNFENVVCTIEESKDLATFTVDELAGSHEAHEQRKK----KEETLDQAVQTKH 148
           KILRSLT++FEN+VC IEESKDL+T TV+EL GS EA+EQRKK    K E+L+QA+Q K 
Sbjct: 161 KILRSLTDDFENIVCAIEESKDLSTLTVEELTGSLEAYEQRKKNKKEKGESLEQALQAK- 220

Query: 149 QSKMKRYSTLKIFKVEVVVVEAAEMVVEAAEMVKVVKAAVMKDTIRRRDSRAKQIGVEED 208
                  +T+K            E V+ A       +   +  T   R +    I  E  
Sbjct: 221 -------ATIK-----------EEKVLYAQNNRGRGRGRGLGQTWGGRSNTNNNI--ECY 280

Query: 209 AVKEDGHYANDCNSDKCYNCGRVRHFASD 234
              + GH A +C S KCYNCG + H + D
Sbjct: 281 NCGKYGHVAKECYSIKCYNCGNLGHISKD 288

[Close]
BLAST of CmoCh11G011470 vs. TrEMBL
Match: A0A151T3L7_CAJCA (Gag-Pol polyprotein OS=Cajanus cajan GN=KK1_016136 PE=4 SV=1)

HSP 1 Score: 149.4 bits (376), Expect = 5.3e-33
Identity = 82/119 (68.91%), Postives = 100/119 (84.03%), Query Frame = 1 

Query: 29  KVFKGTDRVKQVRLQTLHGELESMKMKELESVSDYITRVQTVVNQLNRNEEMLPETRIVE 88
           K  KG +RVKQVRLQTL GELE+M+MKE E VS++ITRV+TVVN+LNRN E LP +R+VE
Sbjct: 76  KAKKGDERVKQVRLQTLRGELENMRMKESEGVSEFITRVETVVNKLNRNGENLPSSRVVE 135

Query: 89  KILRSLTNNFENVVCTIEESKDLATFTVDELAGSHEAHEQRKK----KEETLDQAVQTK 144
           KILRSLT++FEN+VC IEESKDL+T TV+EL GS EA+EQRKK    K E+L+QA+Q K
Sbjct: 136 KILRSLTDDFENIVCAIEESKDLSTLTVEELTGSLEAYEQRKKNKKEKGESLEQALQAK 194

[Close]
BLAST of CmoCh11G011470 vs. TrEMBL
Match: A0A151RCL3_CAJCA (Uncharacterized protein OS=Cajanus cajan GN=KK1_038469 PE=4 SV=1)

HSP 1 Score: 149.1 bits (375), Expect = 6.9e-33
Identity = 84/121 (69.42%), Postives = 97/121 (80.17%), Query Frame = 1 

Query: 29  KVFKGTDRVKQVRLQTLHGELESMKMKELESVSDYITRVQTVVNQLNRNEEMLPETRIVE 88
           KV++G D+VKQV LQTL GELE+MKMKE E VSDYI R QT+VNQLN+N E L + R+VE
Sbjct: 101 KVYRGADKVKQVCLQTLRGELENMKMKESEGVSDYIIRFQTMVNQLNQNGETLTDVRVVE 160

Query: 89  KILRSLTNNFENVVCTIEESKDLATFTVDELAGSHEAHEQRKKK--EETLDQAVQTKHQS 148
           KILRSLT++FENV+C IEESKDL   TVDELA S EAHEQRKKK  EE L+QA+Q K   
Sbjct: 161 KILRSLTDSFENVICAIEESKDLTMITVDELAESLEAHEQRKKKKEEEILEQALQIKASI 220

[Close]
BLAST of CmoCh11G011470 vs. TrEMBL
Match: A0A151U6Q3_CAJCA (Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Cajanus cajan GN=KK1_007702 PE=4 SV=1)

HSP 1 Score: 146.7 bits (369), Expect = 3.4e-32
Identity = 82/126 (65.08%), Postives = 102/126 (80.95%), Query Frame = 1 

Query: 29  KVFKGTDRVKQVRLQTLHGELESMKMKELESVSDYITRVQTVVNQLNRNEEMLPETRIVE 88
           K  KG +RVKQVRLQTL GELE+M+MKE E VS++ITRV+TV N+LNRN E LP +R+VE
Sbjct: 76  KAKKGDERVKQVRLQTLRGELENMRMKESEGVSEFITRVETVANKLNRNGENLPSSRVVE 135

Query: 89  KILRSLTNNFENVVCTIEESKDLATFTVDELAGSHEAHEQRKK----KEETLDQAVQTKH 148
           KILRSLT++FEN+VC IEESKDL+T TV+EL GS EA+EQRKK    K E+L+QA+Q K 
Sbjct: 136 KILRSLTDDFENIVCAIEESKDLSTLTVEELTGSLEAYEQRKKNKKEKGESLEQALQAKA 195

Query: 149 QSKMKR 151
             K ++
Sbjct: 196 TIKEEK 201

[Close]
BLAST of CmoCh11G011470 vs. NCBI nr
Match: gi|545693870|gb|AGW47867.1| (polyprotein [Phaseolus vulgaris])

HSP 1 Score: 170.2 bits (430), Expect = 4.2e-39
Identity = 95/121 (78.51%), Postives = 104/121 (85.95%), Query Frame = 1 

Query: 29  KVFKGTDRVKQVRLQTLHGELESMKMKELESVSDYITRVQTVVNQLNRNEEMLPETRIVE 88
           KVFKG DRVKQVRLQTL GELE+MKM E ESVSDYITRVQ VVNQLNRN E L + R+VE
Sbjct: 101 KVFKGADRVKQVRLQTLRGELENMKMMESESVSDYITRVQAVVNQLNRNGETLTDARVVE 160

Query: 89  KILRSLTNNFENVVCTIEESKDLATFTVDELAGSHEAHEQR--KKKEETLDQAVQTKHQS 148
           KILR+LT+NFE++VC IEESKDLAT TVDELAGS EAHEQR  KKKEETL+QA+QTK   
Sbjct: 161 KILRTLTDNFESIVCAIEESKDLATLTVDELAGSLEAHEQRKKKKKEETLEQALQTKASI 220

[Close]
BLAST of CmoCh11G011470 vs. NCBI nr
Match: gi|1012352765|gb|KYP63953.1| (Gag polyprotein [Cajanus cajan])

HSP 1 Score: 154.1 bits (388), Expect = 3.1e-34
Identity = 103/209 (49.28%), Postives = 131/209 (62.68%), Query Frame = 1 

Query: 29  KVFKGTDRVKQVRLQTLHGELESMKMKELESVSDYITRVQTVVNQLNRNEEMLPETRIVE 88
           K  KG +RVKQVRLQTL GELE+M+MKE E VS++ITRV+TV N+LNRN E LP +R+VE
Sbjct: 101 KAKKGDERVKQVRLQTLRGELENMRMKEFEGVSEFITRVETVANKLNRNGENLPSSRVVE 160

Query: 89  KILRSLTNNFENVVCTIEESKDLATFTVDELAGSHEAHEQRKK----KEETLDQAVQTKH 148
           KILRSLT++FEN+VC IEESKDL+T TV+EL GS EA+EQRKK    K E+L+QA+Q K 
Sbjct: 161 KILRSLTDDFENIVCAIEESKDLSTLTVEELTGSLEAYEQRKKNKKEKGESLEQALQAK- 220

Query: 149 QSKMKRYSTLKIFKVEVVVVEAAEMVVEAAEMVKVVKAAVMKDTIRRRDSRAKQIGVEED 208
                  +T+K            E V+ A       +   +  T   R +    I  E  
Sbjct: 221 -------ATIK-----------EEKVLYAQNNRGRGRGRGLGQTWGGRSNTNNNI--ECY 280

Query: 209 AVKEDGHYANDCNSDKCYNCGRVRHFASD 234
              + GH A +C S KCYNCG + H + D
Sbjct: 281 NCGKYGHVAKECYSIKCYNCGNLGHISKD 288

[Close]
BLAST of CmoCh11G011470 vs. NCBI nr
Match: gi|729325135|ref|XP_010534731.1| (PREDICTED: uncharacterized protein LOC104810237 [Tarenaya hassleriana])

HSP 1 Score: 151.8 bits (382), Expect = 1.5e-33
Identity = 102/174 (58.62%), Postives = 121/174 (69.54%), Query Frame = 1 

Query: 29  KVFKGTDRVKQVRLQTLHGELESMKMKELESVSDYITRVQTVVNQLNRNEEMLPETRIVE 88
           KVFKG DRVKQVRLQTL GELE+MKMKE E VS YI+RVQTVVNQL  N E L + R+VE
Sbjct: 103 KVFKGADRVKQVRLQTLRGELEAMKMKESEDVSSYISRVQTVVNQLKHNGETLDDARVVE 162

Query: 89  KILRSLTNNFENVVCTIEESKDLATFTVDELAGSHEAHEQR--KKKEETLDQAVQTK--- 148
           KILRSLT++FENVVC IEESKDLA  T+DEL GS EAHEQR  KKK++ +++A+QTK   
Sbjct: 163 KILRSLTDDFENVVCAIEESKDLAKITIDELTGSLEAHEQRKKKKKQDVMEEALQTKMSI 222

Query: 149 HQSKMKRYSTLKIFKVEVVVVE-----AAEMVVEAAEMVKVVKAAVMKDTIRRR 193
           +  K +   T +I   E  VVE       +M V  AE +  +K  V   T RRR
Sbjct: 223 NDDKREDKRTNRIGVDEDAVVEDMDDQVDQMSVTTAENMDTMKKIV---TSRRR 273

[Close]
BLAST of CmoCh11G011470 vs. NCBI nr
Match: gi|1012350441|gb|KYP61630.1| (Gag-Pol polyprotein [Cajanus cajan])

HSP 1 Score: 149.4 bits (376), Expect = 7.6e-33
Identity = 82/119 (68.91%), Postives = 100/119 (84.03%), Query Frame = 1 

Query: 29  KVFKGTDRVKQVRLQTLHGELESMKMKELESVSDYITRVQTVVNQLNRNEEMLPETRIVE 88
           K  KG +RVKQVRLQTL GELE+M+MKE E VS++ITRV+TVVN+LNRN E LP +R+VE
Sbjct: 76  KAKKGDERVKQVRLQTLRGELENMRMKESEGVSEFITRVETVVNKLNRNGENLPSSRVVE 135

Query: 89  KILRSLTNNFENVVCTIEESKDLATFTVDELAGSHEAHEQRKK----KEETLDQAVQTK 144
           KILRSLT++FEN+VC IEESKDL+T TV+EL GS EA+EQRKK    K E+L+QA+Q K
Sbjct: 136 KILRSLTDDFENIVCAIEESKDLSTLTVEELTGSLEAYEQRKKNKKEKGESLEQALQAK 194

[Close]
BLAST of CmoCh11G011470 vs. NCBI nr
Match: gi|1012328580|gb|KYP40213.1| (hypothetical protein KK1_038469 [Cajanus cajan])

HSP 1 Score: 149.1 bits (375), Expect = 9.9e-33
Identity = 84/121 (69.42%), Postives = 97/121 (80.17%), Query Frame = 1 

Query: 29  KVFKGTDRVKQVRLQTLHGELESMKMKELESVSDYITRVQTVVNQLNRNEEMLPETRIVE 88
           KV++G D+VKQV LQTL GELE+MKMKE E VSDYI R QT+VNQLN+N E L + R+VE
Sbjct: 101 KVYRGADKVKQVCLQTLRGELENMKMKESEGVSDYIIRFQTMVNQLNQNGETLTDVRVVE 160

Query: 89  KILRSLTNNFENVVCTIEESKDLATFTVDELAGSHEAHEQRKKK--EETLDQAVQTKHQS 148
           KILRSLT++FENV+C IEESKDL   TVDELA S EAHEQRKKK  EE L+QA+Q K   
Sbjct: 161 KILRSLTDSFENVICAIEESKDLTMITVDELAESLEAHEQRKKKKEEEILEQALQIKASI 220

The following BLAST results are available for this feature:
BLAST of CmoCh11G011470 vs. Swiss-Prot
Match NameE-valueIdentityDescription
BLAST of CmoCh11G011470 vs. TrEMBL
Match NameE-valueIdentityDescription
A0A059QBK0_PHAVU2.9e-3978.51Polyprotein OS=Phaseolus vulgaris PE=4 SV=1[more]
A0A151TA96_CAJCA2.1e-3449.28Gag polyprotein OS=Cajanus cajan GN=KK1_018540 PE=4 SV=1[more]
A0A151T3L7_CAJCA5.3e-3368.91Gag-Pol polyprotein OS=Cajanus cajan GN=KK1_016136 PE=4 SV=1[more]
A0A151RCL3_CAJCA6.9e-3369.42Uncharacterized protein OS=Cajanus cajan GN=KK1_038469 PE=4 SV=1[more]
A0A151U6Q3_CAJCA3.4e-3265.08Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Cajanus cajan GN=... [more]
BLAST of CmoCh11G011470 vs. TAIR10
Match NameE-valueIdentityDescription
BLAST of CmoCh11G011470 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|545693870|gb|AGW47867.1|4.2e-3978.51polyprotein [Phaseolus vulgaris][more]
gi|1012352765|gb|KYP63953.1|3.1e-3449.28Gag polyprotein [Cajanus cajan][more]
gi|729325135|ref|XP_010534731.1|1.5e-3358.62PREDICTED: uncharacterized protein LOC104810237 [Tarenaya hassleriana][more]
gi|1012350441|gb|KYP61630.1|7.6e-3368.91Gag-Pol polyprotein [Cajanus cajan][more]
gi|1012328580|gb|KYP40213.1|9.9e-3369.42hypothetical protein KK1_038469 [Cajanus cajan][more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: INTERPRO
TermDefinition
IPR001878Znf_CCHC
Vocabulary: Molecular Function
TermDefinition
GO:0003676nucleic acid binding
GO:0008270zinc ion binding
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0015074 DNA integration
biological_process GO:0008150 biological_process
cellular_component GO:0005575 cellular_component
molecular_function GO:0003676 nucleic acid binding
molecular_function GO:0008270 zinc ion binding
molecular_function GO:0003674 molecular_function
Relationships

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

Feature NameUnique NameType
CmoCh11G011470.1CmoCh11G011470.1mRNA


InterPro
Analysis Name: InterPro Annotations of Cucurbita moschata
Date Performed: 2017-05-19
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR001878Zinc finger, CCHC-typeGENE3DG3DSA:4.10.60.10coord: 207..233
score: 1.
NoneNo IPR availablePANTHERPTHR11439GAG-POL-RELATED RETROTRANSPOSONcoord: 31..144
score: 3.7E-21coord: 221..233
score: 3.7
NoneNo IPR availablePFAMPF14223Retrotran_gag_2coord: 30..132
score: 5.3

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
CmoCh11G011470Cucsa.240240Cucumber (Gy14) v1cgycmoB0673
The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:
GeneOrganismBlock
CmoCh11G011470Watermelon (97103) v2cmowmbB096
CmoCh11G011470Wax gourdcmowgoB0155
CmoCh11G011470Cucurbita moschata (Rifu)cmocmoB040
CmoCh11G011470Cucumber (Gy14) v1cgycmoB0465
CmoCh11G011470Cucurbita maxima (Rimu)cmacmoB070
CmoCh11G011470Cucurbita maxima (Rimu)cmacmoB112
CmoCh11G011470Wild cucumber (PI 183967)cmocpiB092
CmoCh11G011470Cucumber (Chinese Long) v2cmocuB087
CmoCh11G011470Melon (DHL92) v3.5.1cmomeB110
CmoCh11G011470Watermelon (Charleston Gray)cmowcgB097
CmoCh11G011470Watermelon (97103) v1cmowmB083
CmoCh11G011470Cucurbita pepo (Zucchini)cmocpeB110
CmoCh11G011470Cucurbita pepo (Zucchini)cmocpeB127
CmoCh11G011470Bottle gourd (USVL1VR-Ls)cmolsiB130
CmoCh11G011470Cucumber (Gy14) v2cgybcmoB039
CmoCh11G011470Melon (DHL92) v3.6.1cmomedB118
CmoCh11G011470Silver-seed gourdcarcmoB0747
CmoCh11G011470Cucumber (Chinese Long) v3cmocucB0102