RetrogeneDB ID:

retro_tsyr_854

Retrocopy
location
Organism:Tarsier (Tarsius syrichta)
Coordinates:scaffold_218682:4142..4599(-)
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:ENSTSYG00000005290
Aliases:None
Description:adaptor-related protein complex 1, sigma 2 subunit [Source:HGNC Symbol;Acc:560]


Retrocopy-Parental alignment summary:






>retro_tsyr_854
AGTCGTCAGGGAAAGCTTCGACTGCAAAAATGGTAAGTCCCACTATCAGGCAAAGAGAAGTAAAAGATGACAAGAGAACT
TGTTCAAACCGTTTTAGCACGGAAACCTAAAAATGTGCAGCTTCCTTGAGTGGCGAGATCCGAAGATTGTTTACAAAAGA
TATGCTAGTCTGTATTTTTGCTGTGCTATTGAGGATCAGGACAATGAACTAATTACCCTGGACATAATTCATCGTTACAT
GGAATTACTTGACAGGTATTTTGGTAGTGTGTGTGAACTTGATATTATCTTTAATTTTGAGAAGGCTTATTTTATTTTGG
ATGAGTTTCTTTTGGGAAGGGAAGTTCAGGAAACATCTAAGAAAAATGTCCTTAAAGCGATTGAGCAGGCTGATCTGCTG
CAGGAGAAAACAGAGAATATGTATAACAGCAAGATTTTCATAGGGTATAAGAAAGCA

ORF - retro_tsyr_854 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.58 %
Parental protein coverage: 99.33 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalSRQGKT-LQKWYVPLSDKEKKKITRELVQTVLARKPK-MCSFLEWRDLKIVYKRYASLYFA---EDQDNE
SRQGK..LQKW.VPLS.KEK.K.TRELVQTVLARKPK.MCSFLEWRD.KIVYKRYASLYF....EDQDNE
RetrocopySRQGKLRLQKW*VPLSGKEK*KMTRELVQTVLARKPK>MCSFLEWRDPKIVYKRYASLYFCCAIEDQDNE
ParentalLITLEIIHRYVELLDKYFGSVCELDIIFNFEKAYFILDEFLLGGEVQETSKKNVLKAIEQADLLQEKTEN
LITL.IIHRY.ELLD.YFGSVCELDIIFNFEKAYFILDEFLLG.EVQETSKKNVLKAIEQADLLQEKTEN
RetrocopyLITLDIIHRYMELLDRYFGSVCELDIIFNFEKAYFILDEFLLGREVQETSKKNVLKAIEQADLLQEKTEN
ParentalMYHSKSFIGCKKA
MY.SK.FIG.KKA
RetrocopyMYNSKIFIGYKKA

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






Tarsius syrichta was not studied using RNA-Seq expression data.
Tarsius syrichta was not studied using ChIP-Seq data.
Tarsius syrichta was not studied using EST data.
Tarsius syrichta was not studied using FANTOM5 data.
retro_tsyr_854 was not experimentally validated.

Retrocopy orthology:
Tarsius syrichta 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 14 parental genes, and 25 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000204201 retrocopy
Callithrix jacchus ENSCJAG000000043931 retrocopy
Dasypus novemcinctus ENSDNOG000000138881 retrocopy
Monodelphis domestica ENSMODG000000171977 retrocopies
Otolemur garnettii ENSOGAG000000113423 retrocopies
Procavia capensis ENSPCAG000000007331 retrocopy
Pteropus vampyrus ENSPVAG000000102181 retrocopy
Sorex araneus ENSSARG000000001171 retrocopy
Sarcophilus harrisii ENSSHAG000000131192 retrocopies
Sus scrofa ENSSSCG000000121421 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000085171 retrocopy
Tupaia belangeri ENSTBEG000000088342 retrocopies
Tarsius syrichta ENSTSYG00000005290 2 retrocopies
retro_tsyr_1953, retro_tsyr_854 ,
Vicugna pacos ENSVPAG000000076421 retrocopy



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