RetrogeneDB ID:

retro_ptro_2895

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:9:67660114..67660405(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:AK3
Ensembl ID:ENSPTRG00000020742
Aliases:None
Description:adenylate kinase 3 [Source:HGNC Symbol;Acc:17376]


Retrocopy-Parental alignment summary:






>retro_ptro_2895
ATTCATCCCACCAGTGGCCAAGTCTACGGCATTGAATTCAACCCTCCCAAAACTGTGGGCATTGATGATTTAACTGGGGA
GCCTCTCATTCAGCGTGAGGATGATAAACCAGAGACGGTTATCAAGAGACTAAAGGCTCATGAAACCCAAACAAAGCCAG
TCCTGGAATATTACCAGAAAAAAGGGGTGTTGGAAACATTCTCTGGAACAGAAACCAACAAGATTTGGCCCTATGAATAT
GCTTTCCTACAAACTAAAGTTCCACAAACAAGCCAGAAATCTTCAGTTACT

ORF - retro_ptro_2895 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.75 %
Parental protein coverage: 51.32 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalIHPASGRVYNIEFNPPKTVGIDDLTGEPLIQREDDKPETVIKRLKAYEDQTKPVLEYYQKKGVLETFSGT
IHP.SG.VY.IEFNPPKTVGIDDLTGEPLIQREDDKPETVIKRLKA.E.QTKPVLEYYQKKGVLETFSGT
RetrocopyIHPTSGQVYGIEFNPPKTVGIDDLTGEPLIQREDDKPETVIKRLKAHETQTKPVLEYYQKKGVLETFSGT
ParentalETNKIWPYVYAFLQTKVPQRSQKASVT
ETNKIWPY.YAFLQTKVPQ.SQK.SVT
RetrocopyETNKIWPYEYAFLQTKVPQTSQKSSVT

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 .02 RPM 12 .53 RPM
SRP007412_cerebellum 0 .04 RPM 11 .87 RPM
SRP007412_heart 0 .00 RPM 56 .95 RPM
SRP007412_kidney 0 .00 RPM 76 .21 RPM
SRP007412_liver 0 .00 RPM 33 .68 RPM
SRP007412_testis 0 .00 RPM 4 .22 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_2895 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_2895 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_2895 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 25 parental genes, and 51 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000026403 retrocopies
Bos taurus ENSBTAG000000171471 retrocopy
Callithrix jacchus ENSCJAG000000111881 retrocopy
Equus caballus ENSECAG000000112352 retrocopies
Echinops telfairi ENSETEG000000008291 retrocopy
Felis catus ENSFCAG000000280632 retrocopies
Homo sapiens ENSG000001478533 retrocopies
Gorilla gorilla ENSGGOG000000281223 retrocopies
Loxodonta africana ENSLAFG000000011261 retrocopy
Microcebus murinus ENSMICG000000131123 retrocopies
Myotis lucifugus ENSMLUG000000172721 retrocopy
Macaca mulatta ENSMMUG000000001432 retrocopies
Mustela putorius furoENSMPUG000000050062 retrocopies
Nomascus leucogenys ENSNLEG000000088853 retrocopies
Oryctolagus cuniculus ENSOCUG000000114111 retrocopy
Otolemur garnettii ENSOGAG000000074772 retrocopies
Pongo abelii ENSPPYG000000192453 retrocopies
Pan troglodytes ENSPTRG000000008274 retrocopies
Pan troglodytes ENSPTRG00000020742 5 retrocopies
Pteropus vampyrus ENSPVAG000000157511 retrocopy
Sus scrofa ENSSSCG000000235951 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000000211 retrocopy
Tupaia belangeri ENSTBEG000000080543 retrocopies
Tursiops truncatus ENSTTRG000000165241 retrocopy
Vicugna pacos ENSVPAG000000091871 retrocopy



Copyright © RetrogeneDB 2014-2017