RetrogeneDB ID:

retro_amel_666

Retrocopy
location
Organism:Panda (Ailuropoda melanoleuca)
Coordinates:GL192558.1:623840..624180(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:EIF1
Ensembl ID:ENSAMEG00000005620
Aliases:None
Description:eukaryotic translation initiation factor 1 [Source:HGNC Symbol;Acc:3249]


Retrocopy-Parental alignment summary:






>retro_amel_666
ATGTCAGCTCTCCAGATTCTCCACTCTTTCTACCCCTTTGCTCATGCAAATCAGGGTGATGATCTGCTTCCCGCTGGCAC
TGACGATTACACCCGTGTAAGAAGTCAGCAGAGAAACGGCAGGAAGACCCTTACTAACTGTCCCGGGAATGGCTGATGAT
TATGTTAAAAAGAAATTAGTGAAGGCTTTTAAGAAGAAATTTGCCCCCAGCGGTACTGTAATTGAGCGTCCGGAATGTGG
AGAAGTAATTGCCCTACGGGGTGACCGGAGCAAGAACATACGCCGCTTTCTCCTGGACATTGGACGGGCTCAGACTGATC
CGCAGCGGTTCGCGGGTTTT

ORF - retro_amel_666 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.3 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMSAIQNLHSFDPFADASKGDDLLPAGTEDYIHIRIQQRNGRKTLT-TVQGIADDYDKKKLVKAFKKKFAC
MSA.Q.LHSF.PFA.A..GDDLLPAGT.DY...R.QQRNGRKTLT.TV.G.ADDY.KKKLVKAFKKKFA.
RetrocopyMSALQILHSFYPFAHANQGDDLLPAGTDDYTRVRSQQRNGRKTLT>TVPGMADDYVKKKLVKAFKKKFAP
ParentalNGTVIEHPEYGEVIQLQGDQRKNICQFLVEIGLAKDDQLKVHGF
.GTVIE.PE.GEVI.L.GD..KNI..FL..IG.A..D.....GF
RetrocopySGTVIERPECGEVIALRGDRSKNIRRFLLDIGRAQTDPQRFAGF

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






Ailuropoda melanoleuca was not studied using RNA-Seq expression data.
Ailuropoda melanoleuca was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_amel_666 retrocopy.
Ailuropoda melanoleuca was not studied using FANTOM5 data.
retro_amel_666 was not experimentally validated.

Retrocopy orthology:
Ailuropoda melanoleuca 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 24 parental genes, and 117 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG00000005620 9 retrocopies
Bos taurus ENSBTAG000000022821 retrocopy
Canis familiaris ENSCAFG000000295844 retrocopies
Callithrix jacchus ENSCJAG000000121206 retrocopies
Cavia porcellus ENSCPOG000000143503 retrocopies
Dasypus novemcinctus ENSDNOG0000000785611 retrocopies
Dipodomys ordii ENSDORG000000138534 retrocopies
Felis catus ENSFCAG000000244552 retrocopies
Homo sapiens ENSG000001738122 retrocopies
Gorilla gorilla ENSGGOG000000272012 retrocopies
Macropus eugenii ENSMEUG000000153606 retrocopies
Myotis lucifugus ENSMLUG000000050773 retrocopies
Mustela putorius furoENSMPUG000000108836 retrocopies
Nomascus leucogenys ENSNLEG000000110133 retrocopies
Otolemur garnettii ENSOGAG000000315776 retrocopies
Pongo abelii ENSPPYG000000296671 retrocopy
Pan troglodytes ENSPTRG000000091753 retrocopies
Pteropus vampyrus ENSPVAG000000106294 retrocopies
Rattus norvegicus ENSRNOG0000003376515 retrocopies
Sorex araneus ENSSARG000000062871 retrocopy
Sarcophilus harrisii ENSSHAG000000057291 retrocopy
Sus scrofa ENSSSCG000000174306 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000000271915 retrocopies
Tursiops truncatus ENSTTRG000000171353 retrocopies



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