RetrogeneDB ID:

retro_tsyr_1431

Retrocopy
location
Organism:Tarsier (Tarsius syrichta)
Coordinates:scaffold_439343:531..993(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:AP3S1
Ensembl ID:ENSTSYG00000013231
Aliases:None
Description:adaptor-related protein complex 3, sigma 1 subunit [Source:HGNC Symbol;Acc:2013]


Retrocopy-Parental alignment summary:






>retro_tsyr_1431
ATGATCAAGGTGATCCTCAGCTTCAGCAACCACTGGAAGCCGTGGTTCTCCAAGTTCTACCAGTCCTACAGTGAAGATAC
ACAATAGCAGATTATCAGGGAAGCTTTCCATCTGGTATCTAAGAGAAATGAAAATGTAATTTCCTAGAAAGAGGACTATT
AATTCAAGGATCTGACAACAAATTGATTTATGGATATTATGCAACTTTGTAATTTGTCTTCTGTGTGGACTCTTTAGAAA
GTGGACTTGGCATTTTAGATGTAATTCAAGTATTTATTGAAACAGATAAACTTTTGCAAATGTCTGTAAACTGGATTTGA
TTTTTCACGTAGACAAGGTTCACAATATTGTTGCAGAAATGGCGACGGGAGCATGGTCTTGGAGACCAAAGTGAATGAGA
TTGTTACACAAATGGATGCACAAAATAAACTGGAGAAATTTGAGGCTAGCTTAGGAAACTCC

ORF - retro_tsyr_1431 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70. %
Parental protein coverage: 81.15 %
Number of stop codons detected: 3
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMIKAILIFNNHGKPRLSKFYQPYSEDTQQQIIRETFHLVSKRDENVCNFLE-GGLLIGGSDNRLIYRHYA
MIK.IL.F.NH.KP..SKFYQ.YSEDTQ.QIIRE.FHLVSKR.ENV....E.G.L..G.SDN.LIY..YA
RetrocopyMIKVILSFSNHWKPWFSKFYQSYSEDTQ*QIIREAFHLVSKRNENVIS*KE<GLLIQG-SDNKLIYGYYA
ParentalTLYFVFCDSSSE--LGILDLIQVFVETLDK-CFENVCELDLIFHVDKVHNILAEMVM-GGMVLETNMNEI
TL.FVFC..S.E..LGILD.IQVF.ET.DK..F.NVC.LDLIFHVDKVHNI.AEM...G.MVLET..NEI
RetrocopyTL*FVFCVDSLESGLGILDVIQVFIET-DK<TFANVCKLDLIFHVDKVHNIVAEMAT<GSMVLETKVNEI
ParentalVTQIDAQNKLEKSEAGLAGA
VTQ.DAQNKLEK.EA.L...
RetrocopyVTQMDAQNKLEKFEASLGNS

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_1431 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 24 parental genes, and 64 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000002031 retrocopy
Callithrix jacchus ENSCJAG000000167671 retrocopy
Cavia porcellus ENSCPOG000000071923 retrocopies
Felis catus ENSFCAG000000299203 retrocopies
Homo sapiens ENSG000001778793 retrocopies
Gorilla gorilla ENSGGOG000000168952 retrocopies
Loxodonta africana ENSLAFG000000153111 retrocopy
Macropus eugenii ENSMEUG000000106231 retrocopy
Microcebus murinus ENSMICG000000061574 retrocopies
Myotis lucifugus ENSMLUG000000027692 retrocopies
Macaca mulatta ENSMMUG000000152882 retrocopies
Mustela putorius furoENSMPUG000000007821 retrocopy
Mus musculus ENSMUSG000000244804 retrocopies
Otolemur garnettii ENSOGAG000000323761 retrocopy
Ochotona princeps ENSOPRG000000091762 retrocopies
Pongo abelii ENSPPYG000000157002 retrocopies
Pan troglodytes ENSPTRG000000171555 retrocopies
Pteropus vampyrus ENSPVAG000000065753 retrocopies
Rattus norvegicus ENSRNOG000000038291 retrocopy
Sarcophilus harrisii ENSSHAG000000011762 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000117591 retrocopy
Tupaia belangeri ENSTBEG000000047757 retrocopies
Tarsius syrichta ENSTSYG00000013231 9 retrocopies
Tursiops truncatus ENSTTRG000000008133 retrocopies



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