RetrogeneDB ID:

retro_ptro_1966

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:4:10112122..10112377(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DYNLT1
Ensembl ID:ENSPTRG00000018746
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_1966
GCAGTTGGTGGTAATGCTTATCAACACAGCAAAGTGAACCAGTGGACCACAAATGTAGAACAAACTTTAAGCCAACTCCC
CAAGCTGGGAAAACCATTTAAATACATTGTGACCTGTGTAATTATTCAAAAGAACGGAGCTGGATCATACACGGCAAGTT
CCTGCTTTTGGGACAGCTCTACTGACGGGAGCTACACTGTGCGATGGGAGAATAAGACCATGTACTGCATTGTCGGCGCC
TTCGGACTGTCTGTT

ORF - retro_ptro_1966 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.53 %
Parental protein coverage: 76.11 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalAIGGNAYQHSKVNQWTTNVVEQTLSQLTKLGKPFKYIVTCVIMQKNGAGLHTASSCFWDSSTDGSCTVRW
A.GGNAYQHSKVNQWTTNV.EQTLSQL.KLGKPFKYIVTCVI.QKNGAG..TASSCFWDSSTDGS.TVRW
RetrocopyAVGGNAYQHSKVNQWTTNV-EQTLSQLPKLGKPFKYIVTCVIIQKNGAGSYTASSCFWDSSTDGSYTVRW
ParentalENKTMYCIVSAFGLSI
ENKTMYCIV.AFGLS.
RetrocopyENKTMYCIVGAFGLSV

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 11 .10 RPM
SRP007412_cerebellum 0 .00 RPM 14 .05 RPM
SRP007412_heart 0 .00 RPM 53 .54 RPM
SRP007412_kidney 0 .00 RPM 80 .16 RPM
SRP007412_liver 0 .00 RPM 117 .84 RPM
SRP007412_testis 0 .00 RPM 143 .43 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_1966 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_1966 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_1966 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2910
Gorilla gorilla retro_ggor_2015
Pongo abelii retro_pabe_2424

Parental genes homology:
Parental genes homology involve 20 parental genes, and 32 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000044721 retrocopy
Choloepus hoffmanni ENSCHOG000000036561 retrocopy
Callithrix jacchus ENSCJAG000000037183 retrocopies
Dipodomys ordii ENSDORG000000140531 retrocopy
Echinops telfairi ENSETEG000000138831 retrocopy
Homo sapiens ENSG000001464252 retrocopies
Gorilla gorilla ENSGGOG000000099793 retrocopies
Microcebus murinus ENSMICG000000094831 retrocopy
Myotis lucifugus ENSMLUG000000019222 retrocopies
Macaca mulatta ENSMMUG000000194542 retrocopies
Monodelphis domestica ENSMODG000000076541 retrocopy
Mus musculus ENSMUSG000000956771 retrocopy
Oryctolagus cuniculus ENSOCUG000000130122 retrocopies
Otolemur garnettii ENSOGAG000000004942 retrocopies
Pongo abelii ENSPPYG000000171352 retrocopies
Pan troglodytes ENSPTRG00000018746 2 retrocopies
retro_ptro_1230, retro_ptro_1966 ,
Pan troglodytes ENSPTRG000000217931 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000062731 retrocopy
Tarsius syrichta ENSTSYG000000031141 retrocopy
Tursiops truncatus ENSTTRG000000113402 retrocopies



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