CmoCh12G007380 (gene) Cucurbita moschata (Rifu) v1

Overview
NameCmoCh12G007380
Typegene
OrganismCucurbita moschata (Cucurbita moschata (Rifu) v1)
DescriptionTransposon Ty3-I Gag-Pol polyprotein
LocationCmo_Chr12: 5719808 .. 5720942 (-)
RNA-Seq ExpressionCmoCh12G007380
SyntenyCmoCh12G007380
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
ATGTCACATAATAGAGAAGCAATACCACCAGTACCAGATCTTAATACAACCATTCTTCAAGCAATTCAAGGTATGATGGAAATGATGATGGAAGATAGACAAGAAAGAAGGGCGCAACAACAAAGACAAGAACGAACATTACAAGAAGATGAAGGTATAGTAGTACAAGAAAGACAAGTTGATGGTAGATGGAGAGGAAGAAATAACCATGCAACTATTATGCAACCTAGAAGGATGGAAAGAGTACATGAAGATAGAGATGGAGGAGTTAAACTCAAAACCCCACCATTTTGTGGAACAACAGATTCTGAGGCATACTTGCAGTGGGAAAGAAAGATAGAGCATGTGTTTGATTGCAACACCTATAGTGAAAATAAGAGGAGACTTGCTATTGCCGAATTTACCAATCATGCTGGTGATTGGTACCAACATCTCAAATCTGAGAGAAGAAGAAAAGAGGAGGATCCAATAGAGACATGGGAAGAACTTAAAGAAGCCATGAGAAAAAGGTATGTTCCAAAACATTATGAAAGAAATTTGAAAACTAAATTGTAAGGTTTGAGGCAAGGAACAAAAAGTGTGGCGGAATATTATCAAGAGATGGAAACTATGATGGAAATAGCAAATGTTAGAGAAGAAGAAGAAGATACCATGTCTAGATTCCTTGGAGGTTTGAATCGAGAAATTGCTCATCTTGTTGACAGAAATCCACCACCATATCTAGAAGACATGTATCATTATGCTCTCAAAATTGAAAACCAATTGAAGGAAGAAAAAGAGCATTAAAAAAGGTACACATCACGAACTAACACCTTTTCAAATTCTAAAACTTGGAACAATGATAGTTTTGTGAATAGAATTGAATCAATGTCACCAAAAGAAAAGTTTGTGGCTGCTAAAAGAGTGGAGGCTGAGAGTTCCATTGGTAAAAAGAATGAAGCTTCAAAGTCGGTAAAGGAGAAGTCTAGTTCTATTCAATGTTGGAAGTGCAAAGGGTTTGGACACATGAGCAAAGAGTGTGTTAATAAAAAAAGTTATGGTAATAAGGAATGGTATACTTGATTCAGATGATGAATGTGAGGATCATGATTCACAGCTTGTGGAAGAAATCGCAGCATATGATGATGAGTATTGA

mRNA sequence

ATGTCACATAATAGAGAAGCAATACCACCAGTACCAGATCTTAATACAACCATTCTTCAAGCAATTCAAGGTATGATGGAAATGATGATGGAAGATAGACAAGAAAGAAGGGCGCAACAACAAAGACAAGAACGAACATTACAAGAAGATGAAGGTATAGTAGTACAAGAAAGACAAGTTGATGGTAGATGGAGAGGAAGAAATAACCATGCAACTATTATGCAACCTAGAAGGATGGAAAGAGTACATGAAGATAGAGATGGAGGAGTTAAACTCAAAACCCCACCATTTTGTGGAACAACAGATTCTGAGGCATACTTGCAGTGGGAAAGAAAGATAGAGCATGTGTTTGATTGCAACACCTATAGTGAAAATAAGAGGAGACTTGCTATTGCCGAATTTACCAATCATGCTGGTGATTGGTACCAACATCTCAAATCTGAGAGAAGAAGAAAAGAGGAGGATCCAATAGAGACATGGGAAGAACTTAAAGAAGCCATGAGAAAAAGTTTTGTGAATAGAATTGAATCAATGTCACCAAAAGAAAAGTTTGTGGCTGCTAAAAGAGTGGAGGCTGAGAGTTCCATTGATGATGAATGTGAGGATCATGATTCACAGCTTGTGGAAGAAATCGCAGCATATGATGATGAGTATTGA

Coding sequence (CDS)

ATGTCACATAATAGAGAAGCAATACCACCAGTACCAGATCTTAATACAACCATTCTTCAAGCAATTCAAGGTATGATGGAAATGATGATGGAAGATAGACAAGAAAGAAGGGCGCAACAACAAAGACAAGAACGAACATTACAAGAAGATGAAGGTATAGTAGTACAAGAAAGACAAGTTGATGGTAGATGGAGAGGAAGAAATAACCATGCAACTATTATGCAACCTAGAAGGATGGAAAGAGTACATGAAGATAGAGATGGAGGAGTTAAACTCAAAACCCCACCATTTTGTGGAACAACAGATTCTGAGGCATACTTGCAGTGGGAAAGAAAGATAGAGCATGTGTTTGATTGCAACACCTATAGTGAAAATAAGAGGAGACTTGCTATTGCCGAATTTACCAATCATGCTGGTGATTGGTACCAACATCTCAAATCTGAGAGAAGAAGAAAAGAGGAGGATCCAATAGAGACATGGGAAGAACTTAAAGAAGCCATGAGAAAAAGTTTTGTGAATAGAATTGAATCAATGTCACCAAAAGAAAAGTTTGTGGCTGCTAAAAGAGTGGAGGCTGAGAGTTCCATTGATGATGAATGTGAGGATCATGATTCACAGCTTGTGGAAGAAATCGCAGCATATGATGATGAGTATTGA

Protein sequence

MSHNREAIPPVPDLNTTILQAIQGMMEMMMEDRQERRAQQQRQERTLQEDEGIVVQERQVDGRWRGRNNHATIMQPRRMERVHEDRDGGVKLKTPPFCGTTDSEAYLQWERKIEHVFDCNTYSENKRRLAIAEFTNHAGDWYQHLKSERRRKEEDPIETWEELKEAMRKSFVNRIESMSPKEKFVAAKRVEAESSIDDECEDHDSQLVEEIAAYDDEY
Homology
[Close]
BLAST of CmoCh12G007380 vs. ExPASy TrEMBL
Match: A0A5A7U9D0 (Putative gag protein OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold60G003610 PE=4 SV=1)

HSP 1 Score: 250.4 bits (638), Expect = 7.0e-63
Identity = 139/213 (65.26%), Postives = 160/213 (75.12%), Query Frame = 0 

Query: 1   MSHNREAIPPVPDLNTTILQAIQGMMEMMMEDRQERRAQQQRQERTLQEDEGIV---VQE 60
           MSH+ E +P V D N  ILQAIQGM+E+M E+RQERRAQQQR+ R  QEDEG+      E
Sbjct: 1   MSHDGEEVPEVIDPNVAILQAIQGMLELMREERQERRAQQQREVRPFQEDEGMFDLNAHE 60

Query: 61  RQVDG----RWRGRNNHATIMQPRRMERVHEDRDGGVKLKTPPFCGTTDSEAYLQWERKI 120
           RQ+ G    R RGRNN A +MQPRRMERVHEDRDGGVKLK PPF GTTDSE YLQWERKI
Sbjct: 61  RQLGGRGNVRGRGRNNLANVMQPRRMERVHEDRDGGVKLKIPPFTGTTDSETYLQWERKI 120

Query: 121 EHVFDCNTYSENKR-RLAIAEFTNHAGDWYQHLKSERRRKEEDPIETWEELKEAMRKSFV 180
           EHVFDCNT+S+NK+ +LAIAEFTN+A +WY +LKSERRRKEEDPIETWEELKEAMRK FV
Sbjct: 121 EHVFDCNTFSQNKKMKLAIAEFTNYASEWYHYLKSERRRKEEDPIETWEELKEAMRKRFV 180

Query: 181 ---------NRIESMSPKEKFVAAKRVEAESSI 197
                     +++S+    K VA    E E+ I
Sbjct: 181 PKHYERDLKTKLQSLRQDTKSVAEYYREMETLI 213

[Close]
BLAST of CmoCh12G007380 vs. ExPASy TrEMBL
Match: A0A5D3DRJ1 (F15O4.13 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold111G00130 PE=4 SV=1)

HSP 1 Score: 249.2 bits (635), Expect = 1.6e-62
Identity = 139/213 (65.26%), Postives = 159/213 (74.65%), Query Frame = 0 

Query: 1   MSHNREAIPPVPDLNTTILQAIQGMMEMMMEDRQERRAQQQRQERTLQEDEGIV---VQE 60
           MSH+ E +P V D N  ILQAIQGM+E+M E+RQERRAQQQR+ R  QEDEG+      E
Sbjct: 1   MSHDGEEVPEVIDPNVAILQAIQGMLELMREERQERRAQQQREVRPFQEDEGMFDLNAHE 60

Query: 61  RQVDG----RWRGRNNHATIMQPRRMERVHEDRDGGVKLKTPPFCGTTDSEAYLQWERKI 120
           RQ+ G    R RGRNN A +MQPRRMERVHEDRDGGVKLK PPF GT DSE YLQWERKI
Sbjct: 61  RQLGGRGNVRGRGRNNLANVMQPRRMERVHEDRDGGVKLKIPPFTGTADSETYLQWERKI 120

Query: 121 EHVFDCNTYSENKR-RLAIAEFTNHAGDWYQHLKSERRRKEEDPIETWEELKEAMRKSFV 180
           EHVFDCNT+SENK+ +LAIAEFTN+A +WY +LKSERRRKEEDPIETWEELKEAMRK FV
Sbjct: 121 EHVFDCNTFSENKKMKLAIAEFTNYASEWYHYLKSERRRKEEDPIETWEELKEAMRKRFV 180

Query: 181 ---------NRIESMSPKEKFVAAKRVEAESSI 197
                     +++S+    K VA    E E+ I
Sbjct: 181 PKHYERDLKTKLQSLRQGTKSVAEYYREMETLI 213

[Close]
BLAST of CmoCh12G007380 vs. ExPASy TrEMBL
Match: A0A5D3C3D3 (F15O4.13 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold143G001490 PE=4 SV=1)

HSP 1 Score: 249.2 bits (635), Expect = 1.6e-62
Identity = 139/213 (65.26%), Postives = 159/213 (74.65%), Query Frame = 0 

Query: 1   MSHNREAIPPVPDLNTTILQAIQGMMEMMMEDRQERRAQQQRQERTLQEDEGIV---VQE 60
           MSH+ E +P V D N  ILQAIQGM+E+M E+RQERRAQQQR+ R  QEDEG+      E
Sbjct: 1   MSHDGEEVPEVIDPNVAILQAIQGMLELMREERQERRAQQQREVRPFQEDEGMFDLNAHE 60

Query: 61  RQVDG----RWRGRNNHATIMQPRRMERVHEDRDGGVKLKTPPFCGTTDSEAYLQWERKI 120
           RQ+ G    R RGRNN A +MQPRRMERVHEDRDGGVKLK PPF GT DSE YLQWERKI
Sbjct: 61  RQLGGRGNVRGRGRNNLANVMQPRRMERVHEDRDGGVKLKIPPFTGTADSETYLQWERKI 120

Query: 121 EHVFDCNTYSENKR-RLAIAEFTNHAGDWYQHLKSERRRKEEDPIETWEELKEAMRKSFV 180
           EHVFDCNT+SENK+ +LAIAEFTN+A +WY +LKSERRRKEEDPIETWEELKEAMRK FV
Sbjct: 121 EHVFDCNTFSENKKMKLAIAEFTNYASEWYHYLKSERRRKEEDPIETWEELKEAMRKRFV 180

Query: 181 ---------NRIESMSPKEKFVAAKRVEAESSI 197
                     +++S+    K VA    E E+ I
Sbjct: 181 PKHYERDLKTKLQSLRQGTKSVAEYYREMETLI 213

[Close]
BLAST of CmoCh12G007380 vs. ExPASy TrEMBL
Match: A0A5D3CK70 (F15O4.13 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold304G00110 PE=4 SV=1)

HSP 1 Score: 249.2 bits (635), Expect = 1.6e-62
Identity = 139/213 (65.26%), Postives = 159/213 (74.65%), Query Frame = 0 

Query: 1   MSHNREAIPPVPDLNTTILQAIQGMMEMMMEDRQERRAQQQRQERTLQEDEGIV---VQE 60
           MSH+ E +P V D N  ILQAIQGM+E+M E+RQERRAQQQR+ R  QEDEG+      E
Sbjct: 1   MSHDGEEVPEVIDPNVAILQAIQGMLELMREERQERRAQQQREVRPFQEDEGMFDLNAHE 60

Query: 61  RQVDG----RWRGRNNHATIMQPRRMERVHEDRDGGVKLKTPPFCGTTDSEAYLQWERKI 120
           RQ+ G    R RGRNN A +MQPRRMERVHEDRDGGVKLK PPF GT DSE YLQWERKI
Sbjct: 61  RQLGGRGNVRGRGRNNLANVMQPRRMERVHEDRDGGVKLKIPPFTGTADSETYLQWERKI 120

Query: 121 EHVFDCNTYSENKR-RLAIAEFTNHAGDWYQHLKSERRRKEEDPIETWEELKEAMRKSFV 180
           EHVFDCNT+SENK+ +LAIAEFTN+A +WY +LKSERRRKEEDPIETWEELKEAMRK FV
Sbjct: 121 EHVFDCNTFSENKKMKLAIAEFTNYASEWYHYLKSERRRKEEDPIETWEELKEAMRKRFV 180

Query: 181 ---------NRIESMSPKEKFVAAKRVEAESSI 197
                     +++S+    K VA    E E+ I
Sbjct: 181 PKHYERDLKTKLQSLRQGTKSVAEYYREMETLI 213

[Close]
BLAST of CmoCh12G007380 vs. ExPASy TrEMBL
Match: A0A5D3BWE8 (F15O4.13 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold1738G00600 PE=4 SV=1)

HSP 1 Score: 249.2 bits (635), Expect = 1.6e-62
Identity = 139/213 (65.26%), Postives = 159/213 (74.65%), Query Frame = 0 

Query: 1   MSHNREAIPPVPDLNTTILQAIQGMMEMMMEDRQERRAQQQRQERTLQEDEGIV---VQE 60
           MSH+ E +P V D N  ILQAIQGM+E+M E+RQERRAQQQR+ R  QEDEG+      E
Sbjct: 1   MSHDGEEVPEVIDPNVAILQAIQGMLELMREERQERRAQQQREVRPFQEDEGMFDLNAHE 60

Query: 61  RQVDG----RWRGRNNHATIMQPRRMERVHEDRDGGVKLKTPPFCGTTDSEAYLQWERKI 120
           RQ+ G    R RGRNN A +MQPRRMERVHEDRDGGVKLK PPF GT DSE YLQWERKI
Sbjct: 61  RQLGGRGNVRGRGRNNLANVMQPRRMERVHEDRDGGVKLKIPPFTGTADSETYLQWERKI 120

Query: 121 EHVFDCNTYSENKR-RLAIAEFTNHAGDWYQHLKSERRRKEEDPIETWEELKEAMRKSFV 180
           EHVFDCNT+SENK+ +LAIAEFTN+A +WY +LKSERRRKEEDPIETWEELKEAMRK FV
Sbjct: 121 EHVFDCNTFSENKKMKLAIAEFTNYASEWYHYLKSERRRKEEDPIETWEELKEAMRKRFV 180

Query: 181 ---------NRIESMSPKEKFVAAKRVEAESSI 197
                     +++S+    K VA    E E+ I
Sbjct: 181 PKHYERDLKTKLQSLRQGTKSVAEYYREMETLI 213

The following BLAST results are available for this feature:
BLAST of CmoCh12G007380 vs.
Match NameE-valueIdentityDescription
BLAST of CmoCh12G007380 vs. ExPASy TrEMBL
Match NameE-valueIdentityDescription
A0A5A7U9D07.0e-6365.26Putative gag protein OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold60G... [more]
A0A5D3DRJ11.6e-6265.26F15O4.13 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold111G00130 PE=4 ... [more]
A0A5D3C3D31.6e-6265.26F15O4.13 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold143G001490 PE=4... [more]
A0A5D3CK701.6e-6265.26F15O4.13 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold304G00110 PE=4 ... [more]
A0A5D3BWE81.6e-6265.26F15O4.13 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold1738G00600 PE=4... [more]
BLAST of CmoCh12G007380 vs. ExPASy TrEMBL
Match NameE-valueIdentityDescription
InterPro
Analysis Name: InterPro Annotations of Cucurbita moschata (Rifu) v1
Date Performed: 2021-10-25
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableCOILSCoilCoilcoord: 30..51
NoneNo IPR availablePANTHERPTHR35046ZINC KNUCKLE (CCHC-TYPE) FAMILY PROTEINcoord: 33..173
NoneNo IPR availablePANTHERPTHR35046:SF6ZINC KNUCKLE (CCHC-TYPE) FAMILY PROTEINcoord: 33..173
IPR005162Retrotransposon gag domainPFAMPF03732Retrotrans_gagcoord: 129..183
e-value: 3.6E-5
score: 24.0

Relationships

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

Feature NameUnique NameType
CmoCh12G007380.1CmoCh12G007380.1mRNA


GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0015074 DNA integration
molecular_function GO:0003676 nucleic acid binding
molecular_function GO:0008270 zinc ion binding