CmaCh05G009360.1 (mRNA) Cucurbita maxima (Rimu) v1.1

Overview
NameCmaCh05G009360.1
TypemRNA
OrganismCucurbita maxima (Cucurbita maxima (Rimu) v1.1)
DescriptionRetrovirus-related Pol polyprotein from transposon TNT 1-94
LocationCma_Chr05: 7558936 .. 7559793 (-)
Sequence length858
RNA-Seq ExpressionCmaCh05G009360.1
SyntenyCmaCh05G009360.1
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

mRNA sequence

ATGGAAGGAGAATCCAATTTTTCCACTGTTGCACCACCAATCTTCGATGGAGACAATTATCAAATGTGGGCAGTTTGTATGGAGACTTATTTGGAGGCCTTGGATCTTTGGGAAGCAATAGAAGAGGATTACGAGGTCCCTCCGCTTCAAGCAAATCCTACTGTAGCACAAATCAAATTACAGAAGGAAAAGAAGACAAGGAAATCAAAGGCGAAAGCTTGCCTATTTGCTGCTGTATCTCAAATGATCTTCATGCGAATAATGTCCCTCAAAACAGCAAAGGAAATCTGGGATTATCTCAAAGCCGAATATGAAGGAGATGAGAGGATTCGTGGAATGAAAGTCTTGAATTTAATTAGGGATTTTGAGTTGCAGAAGATGAAGGAGTCTGAATCGGTGAAAGAGTACTCTGACAGACTTCTCAGCATTGCCAATAAGGTGAGATTACTTGGTTCTGTATTAAATGATTCCAGGATCGTTGAAAAGCTTCTAGTCACTGTTCCAGAGAAGTTTGAAGCCACCATTACTACTTTGGAGAACCCCAAAGACTTGTCAAAGATTTCTCTTACAGAGCTCTTGAATGCTTTACCAACACAAGAGCAAAGGAGGTCTATGAGGCAAGAAAGGGTGATTGAAGATGCCTTACCTGTTAAGCATCAAGACAGCCGCAGGTATAAAAACAAGAAAATTTTCAAAAACCAATCGACGTATGAAAATCCATCTGCAAATTATCAGAAGACAAAAGGAGGAGGTTTCAAAAATACCTATCCACCTTGCCGCCATTGTGAGAAGAAAGGTCATCCACCATACAAGTGCTGGAGAAGACCTGACGCCTTCAACTTGGACATGAAGCTGTGA

Coding sequence (CDS)

ATGGAAGGAGAATCCAATTTTTCCACTGTTGCACCACCAATCTTCGATGGAGACAATTATCAAATGTGGGCAGTTTGTATGGAGACTTATTTGGAGGCCTTGGATCTTTGGGAAGCAATAGAAGAGGATTACGAGGTCCCTCCGCTTCAAGCAAATCCTACTGTAGCACAAATCAAATTACAGAAGGAAAAGAAGACAAGGAAATCAAAGGCGAAAGCTTGCCTATTTGCTGCTGTATCTCAAATGATCTTCATGCGAATAATGTCCCTCAAAACAGCAAAGGAAATCTGGGATTATCTCAAAGCCGAATATGAAGGAGATGAGAGGATTCGTGGAATGAAAGTCTTGAATTTAATTAGGGATTTTGAGTTGCAGAAGATGAAGGAGTCTGAATCGGTGAAAGAGTACTCTGACAGACTTCTCAGCATTGCCAATAAGGTGAGATTACTTGGTTCTGTATTAAATGATTCCAGGATCGTTGAAAAGCTTCTAGTCACTGTTCCAGAGAAGTTTGAAGCCACCATTACTACTTTGGAGAACCCCAAAGACTTGTCAAAGATTTCTCTTACAGAGCTCTTGAATGCTTTACCAACACAAGAGCAAAGGAGGTCTATGAGGCAAGAAAGGGTGATTGAAGATGCCTTACCTGTTAAGCATCAAGACAGCCGCAGGTATAAAAACAAGAAAATTTTCAAAAACCAATCGACGTATGAAAATCCATCTGCAAATTATCAGAAGACAAAAGGAGGAGGTTTCAAAAATACCTATCCACCTTGCCGCCATTGTGAGAAGAAAGGTCATCCACCATACAAGTGCTGGAGAAGACCTGACGCCTTCAACTTGGACATGAAGCTGTGA

Protein sequence

MEGESNFSTVAPPIFDGDNYQMWAVCMETYLEALDLWEAIEEDYEVPPLQANPTVAQIKLQKEKKTRKSKAKACLFAAVSQMIFMRIMSLKTAKEIWDYLKAEYEGDERIRGMKVLNLIRDFELQKMKESESVKEYSDRLLSIANKVRLLGSVLNDSRIVEKLLVTVPEKFEATITTLENPKDLSKISLTELLNALPTQEQRRSMRQERVIEDALPVKHQDSRRYKNKKIFKNQSTYENPSANYQKTKGGGFKNTYPPCRHCEKKGHPPYKCWRRPDAFNLDMKL
Homology
[Close]
BLAST of CmaCh05G009360.1 vs. TAIR 10
Match: AT3G21000.1 (Gag-Pol-related retrotransposon family protein )

HSP 1 Score: 53.1 bits (126), Expect = 4.1e-07
Identity = 41/187 (21.93%), Postives = 87/187 (46.52%), Query Frame = 0 

Query: 14  IFDGDNYQMWAVCMETYLEALDLWEAI-----EEDYEVPPLQANPTVAQIKLQKEKKTRK 73
           + D  +Y++WA   ++ L    LW+ +     ++  + P L A     ++   ++   + 
Sbjct: 11  VSDQFDYEIWAPITKSTLIEQGLWDVVVNGVPQDPSKNPELAATIQPEELSKWRDFVVKD 70

Query: 74  SKAKACLFAAVSQMIFMRIMSLKTAKEIWDYLKA--EYEGDERIRGMKVLNLIRDFELQK 133
           +KA   L ++++  +F + +S  +AK++WD L+   E     R+  + +  L +  E  K
Sbjct: 71  AKALQILQSSLTDSVFRKTLSASSAKDVWDLLRKGNEQATIRRLEQVTIRRLEKQLEDLK 130

Query: 134 MKESESVKEYSDRLLSIANKVRLLGSVLNDSRIVEKLLVTVPEKFEATITTLENPKDLSK 193
           M + ES   Y D+ L I  ++       +D  I + +  T+   F+   + LE   D+ K
Sbjct: 131 MVDKESGSSYLDKALEILERLGRAKLEKSDYEICKNVFTTLSGSFDGLDSMLEELIDVHK 190

[Close]
BLAST of CmaCh05G009360.1 vs. TAIR 10
Match: AT3G20980.1 (Gag-Pol-related retrotransposon family protein )

HSP 1 Score: 47.8 bits (112), Expect = 1.7e-05
Identity = 28/106 (26.42%), Postives = 53/106 (50.00%), Query Frame = 0 

Query: 6   NFSTVAPPIFDGDNYQMWAVCMETYLEALDLWEAIEEDYEVPP-LQANPTVA------QI 65
           N  T+   + D  NY++WA  M+T L    LW+ ++  Y +PP L   P +A       +
Sbjct: 5   NLPTLQDVVSDELNYEIWAPIMKTSLAEKGLWDIVK--YGIPPDLSKIPELATKIRTQDL 64

Query: 66  KLQKEKKTRKSKAKACLFAAVSQMIFMRIMSLKTAKEIWDYLKAEY 105
            + ++   + +KA   L + +   +F + +   +AK +WD +K +Y
Sbjct: 65  SIYRDSAVKDTKALHLLQSFLPDSVFRKTLETTSAKHLWDLVKEDY 108

The following BLAST results are available for this feature:
BLAST of CmaCh05G009360.1 vs.
Match NameE-valueIdentityDescription
BLAST of CmaCh05G009360.1 vs. TAIR 10
Match NameE-valueIdentityDescription
AT3G21000.14.1e-0721.93Gag-Pol-related retrotransposon family protein [more]
AT3G20980.11.7e-0526.42Gag-Pol-related retrotransposon family protein [more]
InterPro
Analysis Name: InterPro Annotations of Cucurbita maxima (Rimu) v1.1
Date Performed: 2021-10-25
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availablePFAMPF14223Retrotran_gag_2coord: 65..205
e-value: 1.1E-28
score: 99.8
NoneNo IPR availablePANTHERPTHR35317:SF13ZINC FINGER, CCHC-TYPE-RELATEDcoord: 2..276
NoneNo IPR availablePANTHERPTHR35317OS04G0629600 PROTEINcoord: 2..276
IPR025314Domain of unknown function DUF4219PFAMPF13961DUF4219coord: 15..41
e-value: 1.2E-11
score: 44.1

Relationships

This mRNA is a part of the following gene feature(s):

Feature NameUnique NameType
CmaCh05G009360CmaCh05G009360gene


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

Feature NameUnique NameType
CmaCh05G009360.1:exon:2982CmaCh05G009360.1:exon:2982exon


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

Feature NameUnique NameType
CmaCh05G009360.1:cdsCmaCh05G009360.1:cdsCDS


The following polypeptide feature(s) derives from this mRNA:

Feature NameUnique NameType
CmaCh05G009360.1CmaCh05G009360.1-proteinpolypeptide


GO Annotation
GO Assignments
This mRNA is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0015074 DNA integration
molecular_function GO:0016787 hydrolase activity
molecular_function GO:0003676 nucleic acid binding
molecular_function GO:0008270 zinc ion binding