RetrogeneDB ID:

retro_itri_567

Retrocopy
location
Organism:Squirrel (Ictidomys tridecemlineatus)
Coordinates:JH393301.1:12315541..12315863(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RNF7
Ensembl ID:ENSSTOG00000014964
Aliases:None
Description:ring finger protein 7 [Source:HGNC Symbol;Acc:10070]


Retrocopy-Parental alignment summary:






>retro_itri_567
ATGGAAGGTGGCACAGAGCCTTGTACCCTGACCTCCCACTCTGGGAATGCAGGCTTCAAGTGGTGATAGGGTGACAAAAT
GTTCTCACTCCAAAAGTGGAATGTAGTGCCCATGTGGAGCTGGGATGTGGAGTGTGTATGTGTGCCATCTGTAGGGTCTA
GGTGATAGAGGCCTGTCTTAGATTTCAAGCTGGAGATAAACAAAGGATTGAGTTGTGGTCTGTAATCTTTCTTTCCACCA
TTGCTGGATGCCTCTGTGGGTAAAACAGAATAATCATTGCCCTTTCTGCCAGCAGGAGGCAGTGGTCCAAAAACTGGGTA
AA

ORF - retro_itri_567 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.6 %
Parental protein coverage: 97.35 %
Number of stop codons detected: 4
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalVEDSEEPCALSSHSGSAGSKSG-SDKMFSLKKWNAVAMWSWDVECDT-CAICRVQVMDACLRCQAENKQ-
.E...EPC.L.SHSG.AG.K....DKMFSL.KWN.V.MWSWDVEC...CAICRV.V..ACLR.QA..KQ.
RetrocopyMEGGTEPCTLTSHSGNAGFKW**GDKMFSLQKWNVVPMWSWDVECVC<CAICRV*VIEACLRFQAGDKQ<
ParentalEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQRIGK
.D.VVV...CN.SFH.C.M.LWVKQNN.CP.CQQ..VVQ..GK
RetrocopyKD*VVV---CNLSFHHCWMPLWVKQNNHCPFCQQEAVVQKLGK

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Ictidomys tridecemlineatus was not studied using RNA-Seq expression data.
Ictidomys tridecemlineatus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_itri_567 retrocopy.
Ictidomys tridecemlineatus was not studied using FANTOM5 data.
retro_itri_567 was not experimentally validated.

Retrocopy orthology:
Ictidomys tridecemlineatus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 19 parental genes, and 41 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000076941 retrocopy
Choloepus hoffmanni ENSCHOG000000107423 retrocopies
Callithrix jacchus ENSCJAG000000019912 retrocopies
Dasypus novemcinctus ENSDNOG000000059613 retrocopies
Homo sapiens ENSG000001141251 retrocopy
Gorilla gorilla ENSGGOG000000018291 retrocopy
Microcebus murinus ENSMICG000000013531 retrocopy
Macaca mulatta ENSMMUG000000066482 retrocopies
Monodelphis domestica ENSMODG000000212321 retrocopy
Mus musculus ENSMUSG000000512343 retrocopies
Nomascus leucogenys ENSNLEG000000046463 retrocopies
Otolemur garnettii ENSOGAG000000086591 retrocopy
Pongo abelii ENSPPYG000000141672 retrocopies
Pan troglodytes ENSPTRG000000392481 retrocopy
Rattus norvegicus ENSRNOG000000116635 retrocopies
Ictidomys tridecemlineatus ENSSTOG00000014964 3 retrocopies
retro_itri_1245, retro_itri_566, retro_itri_567 ,
Ictidomys tridecemlineatus ENSSTOG000000155801 retrocopy
Tupaia belangeri ENSTBEG000000029172 retrocopies
Tarsius syrichta ENSTSYG000000077785 retrocopies



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