RetrogeneDB ID:

retro_ptro_2449

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:6:80586523..80586869(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:AK4
Ensembl ID:ENSPTRG00000000827
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_2449
GCAGTCATCCTCTTGCTGCTTGCCTAGGGCAAGGGCACCTTGTGCGAGAGGACTGCCCAGAACTTAGGCCTCCAACATTT
CTCTAGTAGCCACTGCTTGCGGGAGAACATCAAGGCCAACACCGGAGTTGGTGACATGGCCAAGCAGTACATAGAGAAAG
GTCTTTTGGTTCTAGACCTGTGATCACATGCCTAATGATGTTGGAGTTGGAGAATAGATGTGGCAGCACTGCCTCCTAGA
TGGCTTTCCTAGGACATCAGGGCAAGCTGATGTCCTGGACAAAATCTGTGAAGTGAATCTAGTGATCATGTTAAACATTC
CATTTGAAACACTTAAAGATCCTCTC

ORF - retro_ptro_2449 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.73 %
Parental protein coverage: 52.02 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalAVILGPPGSGKGTVCQRIAQNFGLQHLSSGHFLRENIKASTEVGEMAKQYIEKSLLVPD-HVITRLMMSE
AVIL.....GKGT.C.R.AQN.GLQH.SS.H.LRENIKA.T.VG.MAKQYIEK.LLV.D..VIT.LMM.E
RetrocopyAVILLLLA*GKGTLCERTAQNLGLQHFSSSHCLRENIKANTGVGDMAKQYIEKGLLVLD<PVITCLMMLE
ParentalLENRRG-QHWLLDGFPRTLGQAEALNKICEVDLVISLNIPFETLKDRL
LENR.G.QH.LLDGFPRT.GQA..L.KICEV.LVI.LNIPFETLKD.L
RetrocopyLENRCG<QHCLLDGFPRTSGQADVLDKICEVNLVIMLNIPFETLKDPL

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain_prefrontal_cortex 0 .00 RPM 5 .79 RPM
SRP007412_cerebellum 0 .00 RPM 23 .30 RPM
SRP007412_heart 0 .00 RPM 21 .66 RPM
SRP007412_kidney 0 .00 RPM 169 .07 RPM
SRP007412_liver 0 .00 RPM 20 .95 RPM
SRP007412_testis 0 .00 RPM 8 .54 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_2449 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_2449 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_2449 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_3619

Parental genes homology:
Parental genes homology involve 12 parental genes, and 52 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000168351 retrocopy
Homo sapiens ENSG000001624336 retrocopies
Gorilla gorilla ENSGGOG000000266444 retrocopies
Myotis lucifugus ENSMLUG000000096221 retrocopy
Macaca mulatta ENSMMUG000000010793 retrocopies
Mus musculus ENSMUSG000000285271 retrocopy
Nomascus leucogenys ENSNLEG000000151633 retrocopies
Otolemur garnettii ENSOGAG000000160241 retrocopy
Ochotona princeps ENSOPRG0000001034517 retrocopies
Pongo abelii ENSPPYG000000012696 retrocopies
Pan troglodytes ENSPTRG00000000827 4 retrocopies
Pan troglodytes ENSPTRG000000207425 retrocopies



Copyright © RetrogeneDB 2014-2017