RetrogeneDB ID:

retro_shar_690

Retrocopy
location
Organism:Tasmanian devil (Sarcophilus harrisii)
Coordinates:GL857224.1:242748..243024(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:AP1S2
Ensembl ID:ENSSHAG00000013119
Aliases:None
Description:adaptor-related protein complex 1, sigma 2 subunit [Source:HGNC Symbol;Acc:560]


Retrocopy-Parental alignment summary:






>retro_shar_690
AAACCCCAAATGTGCAGATTTTTAGAGTGGAAAGATCTGGAGATTGTCTACAAAAGATATGCTAATCTACATTTCTACTG
TGCTATTGAAAATCAGGACAATGACCTAATTACCCTGGAAATAATTCACTGTTACCTTGAACTACTTGATAAATATTTTG
GCAGTGTATGTGAATTTGATATCATCTTTAATTATGAGAAAGTGTATTCTATTCTAGCTGAATTTCTTCAGGGAGGAGTT
CGGGAAACATCCAAGAAAAATGTACTTAAAACCATT

ORF - retro_shar_690 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.49 %
Parental protein coverage: 59.24 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalKPKMCSFLEWRDLKIVYKRYASLYFCCAIEDQDNELITLEIIHRYVELLDKYFGSVCELDIIFNFEKAYF
KP.MC.FLEW.DL.IVYKRYA.L.F.CAIE.QDN.LITLEIIH.Y.ELLDKYFGSVCE.DIIFN.EK.Y.
RetrocopyKPQMCRFLEWKDLEIVYKRYANLHFYCAIENQDNDLITLEIIHCYLELLDKYFGSVCEFDIIFNYEKVYS
ParentalILDEFLLGGEVQETSKKNVLKAI
IL.EFL.GG.V.ETSKKNVLK.I
RetrocopyILAEFLQGG-VRETSKKNVLKTI

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






Sarcophilus harrisii was not studied using RNA-Seq expression data.
Sarcophilus harrisii was not studied using ChIP-Seq data.
Sarcophilus harrisii was not studied using EST data.
Sarcophilus harrisii was not studied using FANTOM5 data.
retro_shar_690 was not experimentally validated.

Retrocopy orthology:
Sarcophilus harrisii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 17 parental genes, and 28 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000204201 retrocopy
Callithrix jacchus ENSCJAG000000043931 retrocopy
Dasypus novemcinctus ENSDNOG000000138881 retrocopy
Homo sapiens ENSG000001822871 retrocopy
Macaca mulatta ENSMMUG000000140551 retrocopy
Monodelphis domestica ENSMODG000000171977 retrocopies
Otolemur garnettii ENSOGAG000000113423 retrocopies
Procavia capensis ENSPCAG000000007331 retrocopy
Pteropus vampyrus ENSPVAG000000102181 retrocopy
Sorex araneus ENSSARG000000001171 retrocopy
Sarcophilus harrisii ENSSHAG000000109731 retrocopy
Sarcophilus harrisii ENSSHAG00000013119 2 retrocopies
retro_shar_651, retro_shar_690 ,
Sus scrofa ENSSSCG000000121421 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000085171 retrocopy
Tupaia belangeri ENSTBEG000000088342 retrocopies
Tarsius syrichta ENSTSYG000000052902 retrocopies
Vicugna pacos ENSVPAG000000076421 retrocopy



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