RetrogeneDB ID:

retro_shar_628

Retrocopy
location
Organism:Tasmanian devil (Sarcophilus harrisii)
Coordinates:GL856830.1:1810526..1810851(+)
Located in intron of:ENSSHAG00000015029
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SUB1
Ensembl ID:ENSSHAG00000014986
Aliases:None
Description:SUB1 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:19985]


Retrocopy-Parental alignment summary:






>retro_shar_628
GACAATAAAATTCACAAAAAGGCCAAAAGGAAAAAGCACTTCTCTAGCAAAAAATCCAAAGAAGCAAAAGGCAAGAGAAT
ATTCTAAAGCATCAGTTTCAACCAAACAAGGGAGCAGCTGAGATGACCATGCATACCAGACTGGTAAAATGAAATATATC
AGTACTGGGGACTTTATAAGAAAAGATCTAAGTGATATTAGAGAATATTGGATGAATGAGGACAATGAAATGAAACTTGG
TAGAAAAAGCATTTATTTTCACCCAAAATAATAGATCTGACTGAAGAAAAAGATTTCTGATATTGTTGATGCAGTAAGAA
AACTG

ORF - retro_shar_628 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 58.18 %
Parental protein coverage: 86.51 %
Number of stop codons detected: 4
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalDSEIDKKAKRKKQ-ALPEKPIKKQKTGESSKAPASSKQSSSRDDHMFQIGKMRYVSVRDFKGKVLIDIRE
D..I.KKAKRKK...L...P.KKQK..E.SKA..S.KQ.SS.DDH..Q.GKM.Y.S..DF..K.L.DIRE
RetrocopyDNKIHKKAKRKKH>SLAKNP-KKQKAREYSKASVSTKQGSS*DDHAYQTGKMKYISTGDFIRKDLSDIRE
ParentalYWMDQEGEMKPGRKGISLNPEQWSQLKEQISDIDDAVRKL
YWM....EMK.GRK.I...P.....LK..ISDI.DAVRKL
RetrocopyYWMNEDNEMKLGRKSIYFHPK**I*LKKKISDIVDAVRKL

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_628 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 25 parental genes, and 83 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000062382 retrocopies
Canis familiaris ENSCAFG000000188795 retrocopies
Callithrix jacchus ENSCJAG000000187182 retrocopies
Cavia porcellus ENSCPOG000000055844 retrocopies
Dasypus novemcinctus ENSDNOG000000076115 retrocopies
Dipodomys ordii ENSDORG000000139162 retrocopies
Felis catus ENSFCAG000000060122 retrocopies
Homo sapiens ENSG000001133872 retrocopies
Gorilla gorilla ENSGGOG000000270333 retrocopies
Loxodonta africana ENSLAFG000000110061 retrocopy
Macropus eugenii ENSMEUG000000077704 retrocopies
Microcebus murinus ENSMICG000000145352 retrocopies
Myotis lucifugus ENSMLUG000000136856 retrocopies
Macaca mulatta ENSMMUG000000114702 retrocopies
Monodelphis domestica ENSMODG000000204103 retrocopies
Mustela putorius furoENSMPUG000000151852 retrocopies
Mus musculus ENSMUSG000000222054 retrocopies
Oryctolagus cuniculus ENSOCUG000000062625 retrocopies
Otolemur garnettii ENSOGAG000000090126 retrocopies
Ochotona princeps ENSOPRG000000128872 retrocopies
Pongo abelii ENSPPYG000000153792 retrocopies
Rattus norvegicus ENSRNOG0000005056312 retrocopies
Sarcophilus harrisii ENSSHAG00000014986 1 retrocopy
retro_shar_628 ,
Ictidomys tridecemlineatus ENSSTOG000000193642 retrocopies
Tarsius syrichta ENSTSYG000000140692 retrocopies



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