RetrogeneDB ID:

retro_ogar_817

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873528.1:821854..822266(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOGAG00000025942
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:CCDC58
Ensembl ID:ENSOGAG00000003190
Aliases:None
Description:coiled-coil domain containing 58 [Source:HGNC Symbol;Acc:31136]


Retrocopy-Parental alignment summary:






>retro_ogar_817
AGTGTGAACTGTGAGGAGTTCACCAAGTTCCAGGAATTACTCAAGGTGATGAGGACAATTGATAACAGAATAGTACATGA
ATTAAACACTATGGTTCCAGTAGCTTCCTTTGCAGGGAAAACTGATGCCAGCCAAACCTGTAAACAACTTTATGAGTCTT
TGATGGCAGCTCATGCCAGTATGGAGAGTCATAAAAAATTGTATAGCCCAGACCTCAGCAATTGTAAAACACCTCCAAGA
AGAGAGAGAAAAGAATTTGGACAATTTAACATTATTAAAGCAACTTAGAAAAGAGCAGACAAAGTTGAAATGGATGCAGT
ATGAATTGAATGTTGAAGAAGTTGTAAATGACAGGAGTTGGAAGCTGTTTAATAAACGCTGCTGAATTCACTTCAAGCCT
CCAAAGAATGAA

ORF - retro_ogar_817 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.78 %
Parental protein coverage: 95.83 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalSVNMEAMKSFDELLKVMRTIDDRIVHELNTTVPTASFAGKIDASQTCKQLYESLMAAHASRDRVIKSCIA
SVN.E....F.ELLKVMRTID.RIVHELNT.VP.ASFAGK.DASQTCKQLYESLMAAHAS.....K....
RetrocopySVNCEEFTKFQELLKVMRTIDNRIVHELNTMVPVASFAGKTDASQTCKQLYESLMAAHASMESHKKLYSP
ParentalQTSAVVKTLREEREKNLDDLTLLK-QLRKEQTKLKWMQSELNVEEVVNDRSWKVFNERCRIHFKPPKNE
..S......R.ER.K........K.QLRKEQTKLKWMQ.ELNVEEVVNDRSWK.FN.RC.IHFKPPKNE
RetrocopyDLSNCKTPPRRER-KEFGQFNIIK>QLRKEQTKLKWMQYELNVEEVVNDRSWKLFNKRC*IHFKPPKNE

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






Otolemur garnettii was not studied using RNA-Seq expression data.
Otolemur garnettii was not studied using ChIP-Seq data.
Otolemur garnettii was not studied using EST data.
Otolemur garnettii was not studied using FANTOM5 data.
retro_ogar_817 was not experimentally validated.

Retrocopy orthology:
Otolemur garnettii 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 26 parental genes, and 66 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000111384 retrocopies
Choloepus hoffmanni ENSCHOG000000045051 retrocopy
Callithrix jacchus ENSCJAG000000081322 retrocopies
Dasypus novemcinctus ENSDNOG000000055351 retrocopy
Equus caballus ENSECAG000000237432 retrocopies
Echinops telfairi ENSETEG000000035643 retrocopies
Homo sapiens ENSG000001601243 retrocopies
Gorilla gorilla ENSGGOG000000019649 retrocopies
Loxodonta africana ENSLAFG000000160491 retrocopy
Myotis lucifugus ENSMLUG000000009372 retrocopies
Macaca mulatta ENSMMUG000000119194 retrocopies
Monodelphis domestica ENSMODG000000182981 retrocopy
Mustela putorius furoENSMPUG000000047771 retrocopy
Mus musculus ENSMUSG000000752291 retrocopy
Nomascus leucogenys ENSNLEG000000002916 retrocopies
Oryctolagus cuniculus ENSOCUG000000026822 retrocopies
Otolemur garnettii ENSOGAG00000003190 2 retrocopies
retro_ogar_2498, retro_ogar_817 ,
Pongo abelii ENSPPYG000000134865 retrocopies
Pteropus vampyrus ENSPVAG000000127072 retrocopies
Rattus norvegicus ENSRNOG000000316532 retrocopies
Sorex araneus ENSSARG000000040541 retrocopy
Sus scrofa ENSSSCG000000251072 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000044191 retrocopy
Tupaia belangeri ENSTBEG000000031966 retrocopies
Tursiops truncatus ENSTTRG000000133991 retrocopy
Vicugna pacos ENSVPAG000000021501 retrocopy



Copyright © RetrogeneDB 2014-2017