RetrogeneDB ID:

retro_ptro_22

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:7:37253848..37254256(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSPTRG00000028614
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:FAM183A
Ensembl ID:ENSPTRG00000000624
Aliases:None
Description:family with sequence similarity 183, member A [Source:HGNC Symbol;Acc:34347]


Retrocopy-Parental alignment summary:






>retro_ptro_22
ATGGCGGGACACCCGAAAGAGAGGGTGGTCACAGATGAGGTCCATCAGAACCAGATCTTGCGGGAGCTGTACCTCAAAGA
GTTACGAACCCAGAAACTCTACACGCAGTACCACGTGAATCCCCTGCGCAAGGTTCACAGGATTACGAGGAAGCCTATGT
CTTGGCATGATAACCTGGAGGAACCCGCAGACGCCAGGTTTCTGAATCTCATTCACCATGCTGCCCAGGGGCCAACGAAG
AAGTACCCAGAGGCACAGACTGAAAACCAGGAAATTGGGTGGGACTCAGAAGCCTTGGTCGACCCAGAACGCCGTGACCA
CAGGATGAACCACTTCAGGGTCTACAATGACATCACTCTGTACAAAGCTAAAATGTGGAGCTTGGGAGAAGATGATCGCC
ACAAGTAG

ORF - retro_ptro_22 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.7 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAGHPKEKVIPDEVHQNQILRELYLKELRTQKLYTQYHVNPLRKIHTVTRKPMSWHDNLEEPADARFLNL
MAGHPKE.V..DEVHQNQILRELYLKELRTQKLYTQYHVNPLRK.H..TRKPMSWHDNLEEPADARFLNL
RetrocopyMAGHPKERVVTDEVHQNQILRELYLKELRTQKLYTQYHVNPLRKVHRITRKPMSWHDNLEEPADARFLNL
ParentalIHHAAQGPRKKYPETQTENQEVGWDLEPLINPERHDRRLNHFRVCSDITLYKAKTWGLG-DDHHK
IHHAAQGP.KKYPE.QTENQE.GWD.E.L..PER.D.R.NHFRV..DITLYKAK.W.LG.DD.HK
RetrocopyIHHAAQGPTKKYPEAQTENQEIGWDSEALVDPERRDHRMNHFRVYNDITLYKAKMWSLGEDDRHK

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 .21 RPM 0 .02 RPM
SRP007412_cerebellum 0 .25 RPM 0 .07 RPM
SRP007412_heart 0 .00 RPM 0 .09 RPM
SRP007412_kidney 0 .63 RPM 0 .13 RPM
SRP007412_liver 0 .43 RPM 0 .00 RPM
SRP007412_testis 14 .65 RPM 10 .75 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_22 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_22 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_22 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_1
Gorilla gorilla retro_ggor_69
Pongo abelii retro_pabe_48

Parental genes homology:
Parental genes homology involve 7 parental genes, and 10 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000053391 retrocopy
Callithrix jacchus ENSCJAG000000033151 retrocopy
Homo sapiens ENSG000001869731 retrocopy
Gorilla gorilla ENSGGOG000000108922 retrocopies
Nomascus leucogenys ENSNLEG000000132303 retrocopies
Pongo abelii ENSPPYG000000014571 retrocopy
Pan troglodytes ENSPTRG00000000624 1 retrocopy
retro_ptro_22 ,



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