RetrogeneDB ID:

retro_itri_1377

Retrocopy
location
Organism:Squirrel (Ictidomys tridecemlineatus)
Coordinates:JH393465.1:1013031..1013415(-)
Located in intron of:ENSSTOG00000001842
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSSTOG00000028442
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_itri_1377
AGGTTAACAATGGAAGAAATGAAGAATGAAGCTGAGACCACTTCCAAGGTTTCTATGCCCCTCTAGGTTAAGTATCCTGT
GTTTAATGAGCTAGAAAGAATACATTTGTCTGCATCTTAGACATCGAAAGCCACTTCCTTAAGGCTGAAAAAGAAAATCC
AGGTTTCACACAAGATACCACTATGAAAATTTTAGAGAAAAAAAATATAGACGTTAACTTCATGGAGACCCTTCTTCATA
TGGCAGCTAATGATGGAGAAAAGCATATGACTGAATGACCAAGCCAGAATTCCAGACCAAAATTAAAAGGCAGAAGCACT
TAAGTAGATTCTCAGTAAGCTCCCAGATGAGACCAGTGACAGAACAAGGTTTCTGCAATCAATG

ORF - retro_itri_1377 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 66.92 %
Parental protein coverage: 61.32 %
Number of stop codons detected: 5
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalRMTMEEMKNEAETTSMVSMPLYAVMYPVFNELERVNLSAAQTLRAA-FIKAEKENPGLTQDIIMKILEKK
R.TMEEMKNEAETTS.VSMPL..V.YPVFNELER..LSA..T..A..F.KAEKENPG.TQD..MKILE..
RetrocopyRLTMEEMKNEAETTSKVSMPL*-VKYPVFNELERIHLSAS*TSKAT<FLKAEKENPGFTQDTTMKILEXX
ParentalSVEVNFTESLLRMAADDVEEYMIERP-EPEFQ-DLNEKARALKQILSKIPDEINDRVRFLQTI
...VNF.E.LL.MAA.D.E..M.E.P..PEFQ.D.N.KA.ALK.ILSK.PDE..DR.RFLQ..
RetrocopyXIDVNFMETLLHMAANDGEKHMTE*P<KPEFQ<DQN*KAEALK*ILSKLPDETSDRTRFLQSM

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






RNA-Seq - click to see more details

Ictidomys tridecemlineatus was not studied using RNA-Seq expression data.