RetrogeneDB ID:

retro_ptro_1594

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:2A:43357389..43357613(-)
Located in intron of:ENSPTRG00000011867
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MYCBP
Ensembl ID:ENSPTRG00000000565
Aliases:None
Description:MYC binding protein [Source:HGNC Symbol;Acc:7554]


Retrocopy-Parental alignment summary:






>retro_ptro_1594
CACTATGGCCCATTAGAACACTGCTAACTCCAAGATCAAGCAATTCTGGAGGTGCTTAGGGCTCTGGGGTGCTGAACGAA
GGTGCTGGTAGCCTTAGAAAAGAACCAGAGAAACCTAATACTGCTTAGGTTTTTTTAAAGCATCACTTAGGAGTTGCTAT
CCCAGAAAATCCAGAAATAGAACTGCTTCCCCTAGAATTGACAGAAATGAAAGATAAATATGAA

ORF - retro_ptro_1594 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 60.53 %
Parental protein coverage: 72.82 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalHYKAADSKREQFRRYLEKSGVLDTLTKVLVALYE-EPEKPNSALDFLKHHLGAATPENPEIELLRLELAE
HY........Q....LE....L...TKVLVAL...EPEKPN.A..FLKHHLG.A.PENPEIELL.LEL.E
RetrocopyHYGPLEHC*LQDQAILEVLRALGC*TKVLVALEK<EPEKPNTA*VFLKHHLGVAIPENPEIELLPLELTE
ParentalMKEKYE
MK.KYE
RetrocopyMKDKYE

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 .04 RPM 3 .81 RPM
SRP007412_cerebellum 0 .00 RPM 6 .31 RPM
SRP007412_heart 0 .00 RPM 6 .70 RPM
SRP007412_kidney 0 .00 RPM 22 .33 RPM
SRP007412_liver 0 .00 RPM 7 .07 RPM
SRP007412_testis 0 .00 RPM 29 .72 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_1594 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_1594 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_1594 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Gorilla gorilla retro_ggor_1678

Parental genes homology:
Parental genes homology involve 19 parental genes, and 32 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000306221 retrocopy
Choloepus hoffmanni ENSCHOG000000131363 retrocopies
Callithrix jacchus ENSCJAG000000365581 retrocopy
Cavia porcellus ENSCPOG000000204471 retrocopy
Homo sapiens ENSG000002141142 retrocopies
Gorilla gorilla ENSGGOG000000058102 retrocopies
Loxodonta africana ENSLAFG000000205142 retrocopies
Macropus eugenii ENSMEUG000000003151 retrocopy
Mus musculus ENSMUSG000000286471 retrocopy
Nomascus leucogenys ENSNLEG000000118142 retrocopies
Oryctolagus cuniculus ENSOCUG000000222032 retrocopies
Otolemur garnettii ENSOGAG000000244353 retrocopies
Pongo abelii ENSPPYG000000015151 retrocopy
Pan troglodytes ENSPTRG00000000565 2 retrocopies
retro_ptro_1120, retro_ptro_1594 ,
Rattus norvegicus ENSRNOG000000171662 retrocopies
Sus scrofa ENSSSCG000000036492 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000215472 retrocopies
Tarsius syrichta ENSTSYG000000056901 retrocopy
Tursiops truncatus ENSTTRG000000095831 retrocopy



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