RetrogeneDB ID:

retro_ogar_2443

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873623.1:7150287..7150798(-)
Located in intron of:ENSOGAG00000014795
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CBX1
Ensembl ID:ENSOGAG00000005658
Aliases:None
Description:chromobox homolog 1 [Source:HGNC Symbol;Acc:1551]


Retrocopy-Parental alignment summary:






>retro_ogar_2443
GAGGAGGTAGAGGAATATGTGGTGTAAAAAGTTCTCAACCACTGAGTGGTAATGGGCAAGGTGGAGGACCTCCTGAAGTA
GAAGGGTTTCTCAGATGAGGACAACACATGGGAGCCAGAATAGAACTTGGATTGCCCCAACCTCATTACTGAGTTTCTGG
AATCACAGAAAACAGTACATGAGACAGATAAATCAGAGGGAGGCAAGCACAAAGCTGATTCTGATTCTAAAGATAAGGGA
GAGGAGAACAAACCAAAGGAGAAGAAAGAAGAGTCTGAAAAGCCACGAGGCATTCCCTGGGGTTTGGAGCTAGAGCAGAT
TATTGGAGTCACAGACTCCAGTGGAGAGCTCATGTTCCTGATGAAATGGAAAAACTCATGATGAGGCTGACCTGGTCCCT
GCCAAGGAAGCCAATGTCAAGTGCCCACAGGTTGTCATATCCTTCTATGAAGAAAGGCTGATGTGGCATTCCTACCCCTT
GGAGGATGATGACAAAAAAGATGACAAGAAT

ORF - retro_ogar_2443 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.8 %
Parental protein coverage: 81.73 %
Number of stop codons detected: 4
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalEEEEEYVVEKVLDRRVVKGKVEYLLKWKGFSDEDNTWEPEENLDCPDLIAEFLQSQKTAHETDKSEGGKR
EE.EEYVV.KVL...VV.GKVE.LLK.KGFSDEDNTWEPE.NLDCP.LI.EFL.SQKT.HETDKSEGGK.
RetrocopyEEVEEYVV*KVLNH*VVMGKVEDLLK*KGFSDEDNTWEPE*NLDCPNLITEFLESQKTVHETDKSEGGKH
ParentalKADSDSEDKGEESKPKKKKEESEKPRGFARGLEPERIIGATDSSGELMFLMKWKNS-DEADLVPAKEANV
KADSDS.DKGEE.KPK.KKEESEKPRG...GLE.E.IIG.TDSSGELMFLMKWKNS.DEADLVPAKEANV
RetrocopyKADSDSKDKGEENKPKEKKEESEKPRGIPWGLELEQIIGVTDSSGELMFLMKWKNS>DEADLVPAKEANV
ParentalKCPQVVISFYEERLTWHSYPSEDDDKKDDKN
KCPQVVISFYEERL.WHSYP.EDDDKKDDKN
RetrocopyKCPQVVISFYEERLMWHSYPLEDDDKKDDKN

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_2443 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 18 parental genes, and 52 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000048902 retrocopies
Bos taurus ENSBTAG000000029499 retrocopies
Callithrix jacchus ENSCJAG000000075322 retrocopies
Dipodomys ordii ENSDORG000000007162 retrocopies
Erinaceus europaeus ENSEEUG000000048743 retrocopies
Echinops telfairi ENSETEG000000002037 retrocopies
Felis catus ENSFCAG000000060561 retrocopy
Myotis lucifugus ENSMLUG000000050302 retrocopies
Mus musculus ENSMUSG000000186661 retrocopy
Oryctolagus cuniculus ENSOCUG000000080213 retrocopies
Otolemur garnettii ENSOGAG00000005658 9 retrocopies
Otolemur garnettii ENSOGAG000000165831 retrocopy
Ochotona princeps ENSOPRG000000036991 retrocopy
Pongo abelii ENSPPYG000000088911 retrocopy
Rattus norvegicus ENSRNOG000000086892 retrocopies
Sarcophilus harrisii ENSSHAG000000081921 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000239863 retrocopies
Tarsius syrichta ENSTSYG000000047692 retrocopies



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