RetrogeneDB ID:

retro_tsyr_1677

Retrocopy
location
Organism:Tarsier (Tarsius syrichta)
Coordinates:scaffold_5416:6048..6317(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:UBE2D4
Ensembl ID:ENSTSYG00000000595
Aliases:None
Description:ubiquitin-conjugating enzyme E2D 4 (putative) [Source:HGNC Symbol;Acc:21647]


Retrocopy-Parental alignment summary:






>retro_tsyr_1677
ATCCACAAGAAATTGAATGACCTGACAGGAGGACTGTAGAATAGTGTTCAGCAGGTCCTGTTGGAGATGACATGTTCCAT
GGCAAAATAGAACAATAGGGATAAATGACAGTCCTATTAGGGTGGAGTGTTTTTCTTGAAAATTCATTTTCCAAAAGATG
GCACTTCAAACCACCTAAGGTTACCTGTACAACAGGAATATATCATCCAAATGTAAACAGTAATGGCAGCATCTGTCTTG
ATATTCTACGGGCACAGTGGTCTCCAGCA

ORF - retro_tsyr_1677 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.47 %
Parental protein coverage: 62.33 %
Number of stop codons detected: 2
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalIQKELTDL-QRDPPAQCSAGPVGDDLFH-WQATIMGPNDSP-YQGGVFFLSIHFPTD-YPFKPPKVAFTT
I.K.L.DL..R.....CSAGPVGDD.FH.WQ....G.NDSP.Y.GGVFFL.IHFP.D...FKPPKV..TT
RetrocopyIHKKLNDL<DRRTVE*CSAGPVGDDMFH<WQNRTIGINDSP<Y*GGVFFLKIHFPKD<WHFKPPKVTCTT
ParentalKIYHPNINSNGSICLDILRSQWSPA
.IYHPN.NSNGSICLDILR.QWSPA
RetrocopyGIYHPNVNSNGSICLDILRAQWSPA

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_1677 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 16 parental genes, and 62 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000039971 retrocopy
Callithrix jacchus ENSCJAG000000078754 retrocopies
Dipodomys ordii ENSDORG000000068885 retrocopies
Homo sapiens ENSG000000789672 retrocopies
Gorilla gorilla ENSGGOG000000033783 retrocopies
Myotis lucifugus ENSMLUG000000119193 retrocopies
Macaca mulatta ENSMMUG000000024105 retrocopies
Nomascus leucogenys ENSNLEG000000033643 retrocopies
Oryctolagus cuniculus ENSOCUG000000089001 retrocopy
Pongo abelii ENSPPYG000000297271 retrocopy
Sus scrofa ENSSSCG000000167222 retrocopies
Tupaia belangeri ENSTBEG000000036919 retrocopies
Tarsius syrichta ENSTSYG00000000595 14 retrocopies
Tarsius syrichta ENSTSYG000000022815 retrocopies
Tarsius syrichta ENSTSYG000000054591 retrocopy
Tarsius syrichta ENSTSYG000000112293 retrocopies



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