CmoCh12G007450 (gene) Cucurbita moschata (Rifu)

Overview
NameCmoCh12G007450
Typegene
OrganismCucurbita moschata (Cucurbita moschata (Rifu))
DescriptionRetrotransposon protein, putative, Ty3-gypsy subclass
LocationCmo_Chr12 : 5850637 .. 5851661 (-)
Genome Viewer
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.
ATGTCACATAATGGAGAAGCAGTACCACCAGTACCAGATCTTAATACAGCCATTCTTCAAGCAATTCAAGGTATGATGGAAATGATGATGGAAGATAGACAAGAAAGAACGGCGCAACAACAAAGACAAGAACGAACATTACAAGAAGATGAAGGTATAGTAGCACAAGAAAGACAAGTTGATGGTAGATGGAGAGGAAGAAATAACCATGCAACTATTATGCAACCTAGAAGGATGGAAAGAGTACATGAGATAGAGATGGGGGAGTTAAACTCAAAATCCCGCCCTTTTGTGGAACGGCAGATTCTGAGGCATACTTGCAGTGGAAAAGAAAGATAGAGCATGTGTTTGATTGCAACACCTATAGTGAAAATAAGAAGATGAGACTAGCTATTGCTGAATTTACCAATCATGCTGGTGATTGGTACCAACATCTCAAATCCGAGAGAAGAAGAAAAGAGGAGGATCCAAAAGAGACATGGGAAGAACTTAAAGAAGCCATGAGAAAAAGGTATGTTCCAAAACATTATGAAAGAAATTTGAAAACTAAATTGCAAGGTTTGAGGCAAGGAACAAAAAGTGTGGCGGAATATTATCAAGAGATGGAGACTATGATGGAAAGAGCAAATGTTAGAGAAGAATAAGAAGATACCATGTTTAGATTCCTTGGAGGTTTGAATCGAGAAATTTCTCATCTTGTTGACAGAAATCCACCGCCATATCTGGAAGACATGTATCATTATGCTCTCAAAATTGAAGATCAATTGAAGGAAGAAAAAGAGCATTCAAAAAGGTACACATCACGAACTAACACCTTTTCAAATTCTAAAACTTGGAACAAGGATAGTTTTGTGAATAGAAATGAATCAATGTCACCAAAAGAAGAGTTTGTGGCTGCTAAAAGAGTGGAGGCTGAGAGTTCCATTGGTAAAAAGAATGAAGCTTCAAAGACGGTAAAGGAGAAGTCTAGTTCTATTCAATGTTGGAAGTGCAAAGGGTTTGGACACATGAGCAAAGAGTGTTAA

mRNA sequence

ATGTCACATAATGGAGAAGCAGTACCACCAGTACCAGATCTTAATACAGCCATTCTTCAAGCAATTCAAGGTATGATGGAAATGATGATGGAAGATAGACAAGAAAGAACGGCGCAACAACAAAGACAAGAACGAACATTACAAGAAGATGAAGGTATAGTAGCACAAGAAAGACAAGTTGATGATTCTGAGGCATACTTGCAGTGGAAAAGAAAGATAGAGCATGTGTTTGATTGCAACACCTATAGTGAAAATAAGAAGATGAGACTAGCTATTGCTGAATTTACCAATCATGCTGGTGATTGGTACCAACATCTCAAATCCGAGAGAAGAAGAAAAGAGGAGGATCCAAAAGAGACATGGGAAGAACTTAAAGAAGCCATGAGAAAAAGAAATCCACCGCCATATCTGGAAGACATGTATCATTATGCTCTCAAAATTGAAGATCAATTGAAGGAAGAAAAAGAGCATTCAAAAAGGTACACATCACGAACTAACACCTTTTCAAATTCTAAAACTTGGAACAAGGATAGTTTTGTGAATAGAAATGAATCAATGTCACCAAAAGAAGAGTTTGTGGCTGCTAAAAGAGTGGAGGCTGAGAGTTCCATTGGTAAAAAGAATGAAGCTTCAAAGACGGTAAAGGAGAAGTCTAGTTCTATTCAATGTTGGAAGTGCAAAGGGTTTGGACACATGAGCAAAGAGTGTTAA

Coding sequence (CDS)

ATGTCACATAATGGAGAAGCAGTACCACCAGTACCAGATCTTAATACAGCCATTCTTCAAGCAATTCAAGGTATGATGGAAATGATGATGGAAGATAGACAAGAAAGAACGGCGCAACAACAAAGACAAGAACGAACATTACAAGAAGATGAAGGTATAGTAGCACAAGAAAGACAAGTTGATGATTCTGAGGCATACTTGCAGTGGAAAAGAAAGATAGAGCATGTGTTTGATTGCAACACCTATAGTGAAAATAAGAAGATGAGACTAGCTATTGCTGAATTTACCAATCATGCTGGTGATTGGTACCAACATCTCAAATCCGAGAGAAGAAGAAAAGAGGAGGATCCAAAAGAGACATGGGAAGAACTTAAAGAAGCCATGAGAAAAAGAAATCCACCGCCATATCTGGAAGACATGTATCATTATGCTCTCAAAATTGAAGATCAATTGAAGGAAGAAAAAGAGCATTCAAAAAGGTACACATCACGAACTAACACCTTTTCAAATTCTAAAACTTGGAACAAGGATAGTTTTGTGAATAGAAATGAATCAATGTCACCAAAAGAAGAGTTTGTGGCTGCTAAAAGAGTGGAGGCTGAGAGTTCCATTGGTAAAAAGAATGAAGCTTCAAAGACGGTAAAGGAGAAGTCTAGTTCTATTCAATGTTGGAAGTGCAAAGGGTTTGGACACATGAGCAAAGAGTGTTAA
Homology
[Close]
BLAST of CmoCh12G007450 vs. TrEMBL
Match: U5GF62_POPTR (Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0004s13385g PE=4 SV=1)

HSP 1 Score: 97.1 bits (240), Expect = 3.1e-17
Identity = 65/184 (35.33%), Postives = 97/184 (52.72%), Query Frame = 1 

Query: 62  DSEAYLQWKRKIEHVFDCNTYSENKKMRLAIAEFTNHAGDWYQHLKSERRRKEEDPKETW 121
           D EAYL+W+RK+E +FD + YSE KK++L + EF +HA  W++ L  ERRR  E P  TW
Sbjct: 101 DPEAYLEWERKVEMIFDIHRYSEEKKVKLVVVEFIDHAMVWWERLVVERRRNRERPVSTW 160

Query: 122 EELKEAMRKRN-PPPYLEDMYHYALKIEDQLKEEKEHSKRYTS---RTNTFSNSKTWNKD 181
           E+LK  M+KR  P  Y  +++++   I    K  +E+ K       R N   + +  N  
Sbjct: 161 EKLKTIMKKRYVPKKYYRELFNHLQMITQGNKSVEEYRKELDMAMIRANVNEDEERMN-- 220

Query: 182 SFVNRNESMSPKEEFVAAKRVEAESSIGKKNEASKTVK-----EKSSSIQCWKCKGFGHM 237
               R E  +P + FV +K  E  S   +     K +K     + +  I+C KC+G GH 
Sbjct: 221 ---YRREGSAPTKPFVTSKNAEPTSMKKQVVANDKKLKVEVQPKHNRDIKCLKCQGLGHY 279

[Close]
BLAST of CmoCh12G007450 vs. TrEMBL
Match: A0A151QQI7_CAJCA (Uncharacterized protein (Fragment) OS=Cajanus cajan GN=KK1_046719 PE=4 SV=1)

HSP 1 Score: 83.6 bits (205), Expect = 3.6e-13
Identity = 66/198 (33.33%), Postives = 95/198 (47.98%), Query Frame = 1 

Query: 61  DDSEAYLQWKRKIEHVFDCNTYSENKKMRLAIAEFTNHAGDWYQHLKSERRRKEEDPKET 120
           D+ E YL W+ K+E +F C+  SE +K+ LA   F  HA  W+  L+ ERR+K E P + 
Sbjct: 11  DNVETYLDWEMKVEQLFSCHGVSEERKVSLATLSFQGHAMYWWTSLEKERRKKHEPPIQY 70

Query: 121 WEELKEAMRKRNPPPYLEDMYHYALKIEDQLKEEKEHS--------------------KR 180
           W EL+ A+R+R+ PPY      Y  ++ D+L+  K+ S                    K 
Sbjct: 71  WNELRSALRRRHIPPY------YDRELMDKLQRLKQGSSSVEEYRKSMELLMIRAGIRKE 130

Query: 181 YTSRTNTFSNSKTWNKDSFVNRNESM--SPKEEFVAAKRVEAESSIGKKNEASKTVKEKS 237
             +  + F NS      SF     S    PKEE    K  E E S  K    + + + KS
Sbjct: 131 ERTTISRFQNSTLSYSKSFKKEGHSSLPYPKEE----KEKEKEKSSFK----APSKESKS 190

[Close]
BLAST of CmoCh12G007450 vs. TrEMBL
Match: U5CWU0_AMBTC (Uncharacterized protein (Fragment) OS=Amborella trichopoda GN=AMTR_s05090p00005430 PE=4 SV=1)

HSP 1 Score: 82.8 bits (203), Expect = 6.1e-13
Identity = 41/81 (50.62%), Postives = 57/81 (70.37%), Query Frame = 1 

Query: 62  DSEAYLQWKRKIEHVFDCNTYSENKKMRLAIAEFTNHAGDWYQHLKSERRRKEEDPKETW 121
           D EAYL+W++K+E VFDC+ YS+ KK++LA  EFT++A  W+  L + RRR  + P ETW
Sbjct: 117 DPEAYLEWEKKMELVFDCHNYSDMKKVKLAAIEFTDYAIVWWDQLCTNRRRSGDRPIETW 176

Query: 122 EELKEAMRKR-NPPPYLEDMY 142
           E +K  MR+R  PP Y  D+Y
Sbjct: 177 EAMKRVMRRRFVPPHYYRDLY 197

[Close]
BLAST of CmoCh12G007450 vs. TrEMBL
Match: A5AZG1_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_020379 PE=4 SV=1)

HSP 1 Score: 82.4 bits (202), Expect = 8.0e-13
Identity = 56/142 (39.44%), Postives = 83/142 (58.45%), Query Frame = 1 

Query: 15  NTAILQAIQGMMEMM---------MEDRQERTAQQQRQERT-----LQEDEGIVAQERQV 74
           ++ ILQA+Q   E M           DRQ+      R+ERT     L+  EGI + + + 
Sbjct: 16  SSLILQAMQQQFECMNMVFNDIRDQMDRQDAVIASLREERTQKSLMLEGKEGIPSFQGK- 75

Query: 75  DDSEAYLQWKRKIEHVFDCNTYSENKKMRLAIAEFTNHAGDWYQHLKSERRRKEEDPKET 134
           ++ E YL+W++K+E +F+C+ YSE KK++LA+ EFT++A  W+  L   RRR  E P ET
Sbjct: 76  NNPEVYLEWEKKVEFIFECHNYSEEKKVKLAVIEFTDYAIIWWDQLVMNRRRNYERPIET 135

Query: 135 WEELKEAMRK-RNPPPYLEDMY 142
           WEE+K  MR+   P  Y  D+Y
Sbjct: 136 WEEMKATMRRWFVPSHYYRDLY 156

[Close]
BLAST of CmoCh12G007450 vs. TrEMBL
Match: A0A0B2PC14_GLYSO (Uncharacterized protein (Fragment) OS=Glycine soja GN=glysoja_046828 PE=4 SV=1)

HSP 1 Score: 81.3 bits (199), Expect = 1.8e-12
Identity = 44/100 (44.00%), Postives = 63/100 (63.00%), Query Frame = 1 

Query: 61  DDSEAYLQWKRKIEHVFDCNTYSENKKMRLAIAEFTNHAGDWYQHLKSERRRKEEDPKET 120
           +D EAYL+W+ KIEHVF CN Y E++K++LA  EF+++A  W+  L+ ER R EE   +T
Sbjct: 57  NDPEAYLEWEMKIEHVFSCNNYEEDQKVKLAATEFSDYALVWWNKLQKERARNEEPMVDT 116

Query: 121 WEELKEAMRKRN-PPPYLEDMYHYALKIEDQLKEEKEHSK 160
           W E+K+ MRKR  P  Y  D+     K+    K  +E+ K
Sbjct: 117 WTEMKKIMRKRYVPASYSRDLKFKLQKLTQGNKGVEEYFK 156

[Close]
BLAST of CmoCh12G007450 vs. NCBI nr
Match: gi|566166336|ref|XP_006384341.1| (hypothetical protein POPTR_0004s13385g [Populus trichocarpa])

HSP 1 Score: 97.1 bits (240), Expect = 4.5e-17
Identity = 65/184 (35.33%), Postives = 97/184 (52.72%), Query Frame = 1 

Query: 62  DSEAYLQWKRKIEHVFDCNTYSENKKMRLAIAEFTNHAGDWYQHLKSERRRKEEDPKETW 121
           D EAYL+W+RK+E +FD + YSE KK++L + EF +HA  W++ L  ERRR  E P  TW
Sbjct: 101 DPEAYLEWERKVEMIFDIHRYSEEKKVKLVVVEFIDHAMVWWERLVVERRRNRERPVSTW 160

Query: 122 EELKEAMRKRN-PPPYLEDMYHYALKIEDQLKEEKEHSKRYTS---RTNTFSNSKTWNKD 181
           E+LK  M+KR  P  Y  +++++   I    K  +E+ K       R N   + +  N  
Sbjct: 161 EKLKTIMKKRYVPKKYYRELFNHLQMITQGNKSVEEYRKELDMAMIRANVNEDEERMN-- 220

Query: 182 SFVNRNESMSPKEEFVAAKRVEAESSIGKKNEASKTVK-----EKSSSIQCWKCKGFGHM 237
               R E  +P + FV +K  E  S   +     K +K     + +  I+C KC+G GH 
Sbjct: 221 ---YRREGSAPTKPFVTSKNAEPTSMKKQVVANDKKLKVEVQPKHNRDIKCLKCQGLGHY 279

[Close]
BLAST of CmoCh12G007450 vs. NCBI nr
Match: gi|923883636|ref|XP_013713545.1| (PREDICTED: uncharacterized protein LOC106417257 [Brassica napus])

HSP 1 Score: 85.9 bits (211), Expect = 1.0e-13
Identity = 43/86 (50.00%), Postives = 57/86 (66.28%), Query Frame = 1 

Query: 61  DDSEAYLQWKRKIEHVFDCNTYSENKKMRLAIAEFTNHAGDWYQHLKSERRRKEEDPKET 120
           +D +A+L+W+RKIEHVFDC  YSE +K+RLA  EF+ +A +WY  + + RRR  E P ET
Sbjct: 128 NDPDAFLEWERKIEHVFDCQNYSELRKVRLAATEFSGYAINWYDQVLTHRRRTGEQPIET 187

Query: 121 WEELKEAMRKRNPPPYLEDMYHYALK 147
           WEEL   MRKR  P +     H  L+
Sbjct: 188 WEELTLLMRKRFLPAHYHRDLHQKLR 213

[Close]
BLAST of CmoCh12G007450 vs. NCBI nr
Match: gi|848902139|ref|XP_012851061.1| (PREDICTED: LOW QUALITY PROTEIN: uncharacterized protein LOC105970777 [Erythranthe guttata])

HSP 1 Score: 84.3 bits (207), Expect = 3.0e-13
Identity = 43/84 (51.19%), Postives = 58/84 (69.05%), Query Frame = 1 

Query: 62  DSEAYLQWKRKIEHVFDCNTYSENKKMRLAIAEFTNHAGDWYQHLKSERRRKEEDPKETW 121
           D EAYL+W++KIE VF+C+  SENKK++LA  EFT++A  W+  L  ERRR  E P ETW
Sbjct: 124 DPEAYLEWEKKIEMVFECHNCSENKKVKLAAIEFTDYAIIWWDQLLKERRRNYEQPVETW 183

Query: 122 EELKEAMRKRNPPPYLEDMYHYAL 146
           +E+K  MRKR    ++ + YH  L
Sbjct: 184 DEMKAIMRKR----FILNYYHREL 203

[Close]
BLAST of CmoCh12G007450 vs. NCBI nr
Match: gi|923614309|ref|XP_013745238.1| (PREDICTED: uncharacterized protein LOC106447826 [Brassica napus])

HSP 1 Score: 84.3 bits (207), Expect = 3.0e-13
Identity = 42/86 (48.84%), Postives = 57/86 (66.28%), Query Frame = 1 

Query: 61  DDSEAYLQWKRKIEHVFDCNTYSENKKMRLAIAEFTNHAGDWYQHLKSERRRKEEDPKET 120
           +D +A+L+W+RKIEHVFDC  YSE +K+RLA  EF+ +A +WY  + + RRR  E P ET
Sbjct: 128 NDPDAFLEWERKIEHVFDCQNYSELRKVRLAATEFSGYAINWYDQVLTHRRRTGERPIET 187

Query: 121 WEELKEAMRKRNPPPYLEDMYHYALK 147
           W+EL   MRKR  P +     H  L+
Sbjct: 188 WDELTLLMRKRFVPTHYHRDLHQKLR 213

[Close]
BLAST of CmoCh12G007450 vs. NCBI nr
Match: gi|923615159|ref|XP_013745557.1| (PREDICTED: uncharacterized protein LOC106448178 [Brassica napus])

HSP 1 Score: 84.3 bits (207), Expect = 3.0e-13
Identity = 42/86 (48.84%), Postives = 57/86 (66.28%), Query Frame = 1 

Query: 61  DDSEAYLQWKRKIEHVFDCNTYSENKKMRLAIAEFTNHAGDWYQHLKSERRRKEEDPKET 120
           +D +A+L+W+RKIEHVFDC  YSE +K+RLA  EF+ +A +WY  + + RRR  E P ET
Sbjct: 128 NDPDAFLEWERKIEHVFDCQNYSELRKVRLAATEFSGYAINWYDQVLTHRRRTGERPIET 187

Query: 121 WEELKEAMRKRNPPPYLEDMYHYALK 147
           W+EL   MRKR  P +     H  L+
Sbjct: 188 WDELTLLMRKRFVPTHYHRDLHQKLR 213

The following BLAST results are available for this feature:
BLAST of CmoCh12G007450 vs. Swiss-Prot
Match NameE-valueIdentityDescription
BLAST of CmoCh12G007450 vs. TrEMBL
Match NameE-valueIdentityDescription
U5GF62_POPTR3.1e-1735.33Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0004s13385g PE=4 SV=1[more]
A0A151QQI7_CAJCA3.6e-1333.33Uncharacterized protein (Fragment) OS=Cajanus cajan GN=KK1_046719 PE=4 SV=1[more]
U5CWU0_AMBTC6.1e-1350.62Uncharacterized protein (Fragment) OS=Amborella trichopoda GN=AMTR_s05090p000054... [more]
A5AZG1_VITVI8.0e-1339.44Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_020379 PE=4 SV=1[more]
A0A0B2PC14_GLYSO1.8e-1244.00Uncharacterized protein (Fragment) OS=Glycine soja GN=glysoja_046828 PE=4 SV=1[more]
BLAST of CmoCh12G007450 vs. TAIR10
Match NameE-valueIdentityDescription
BLAST of CmoCh12G007450 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|566166336|ref|XP_006384341.1|4.5e-1735.33hypothetical protein POPTR_0004s13385g [Populus trichocarpa][more]
gi|923883636|ref|XP_013713545.1|1.0e-1350.00PREDICTED: uncharacterized protein LOC106417257 [Brassica napus][more]
gi|848902139|ref|XP_012851061.1|3.0e-1351.19PREDICTED: LOW QUALITY PROTEIN: uncharacterized protein LOC105970777 [Erythranth... [more]
gi|923614309|ref|XP_013745238.1|3.0e-1348.84PREDICTED: uncharacterized protein LOC106447826 [Brassica napus][more]
gi|923615159|ref|XP_013745557.1|3.0e-1348.84PREDICTED: uncharacterized protein LOC106448178 [Brassica napus][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:0008150 biological_process
cellular_component GO:0005575 cellular_component
molecular_function GO:0003676 nucleic acid binding
molecular_function GO:0008270 zinc ion binding
Relationships

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

Feature NameUnique NameType
CmoCh12G007450.1CmoCh12G007450.1mRNA


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: 221..236
score: 2.
IPR001878Zinc finger, CCHC-typePROFILEPS50158ZF_CCHCcoord: 223..236
score: 8

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:
GeneOrganismBlock
CmoCh12G007450Cucurbita moschata (Rifu)cmocmoB135
CmoCh12G007450Cucurbita maxima (Rimu)cmacmoB003