RetrogeneDB ID:

retro_ogar_1547

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873550.1:8868466..8869085(-)
Located in intron of:ENSOGAG00000024168
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ARPC1A
Ensembl ID:ENSOGAG00000010870
Aliases:None
Description:actin related protein 2/3 complex, subunit 1A, 41kDa [Source:HGNC Symbol;Acc:703]


Retrocopy-Parental alignment summary:






>retro_ogar_1547
GAATCTGAAAATGACTGGTGGGTAAGCAAACACATTAAAAAGCCAATTCGCTCCACAGGCCTCAGCTTAGATTGGCATCC
CAACAATGTTTTCCTGGCAGCAGGATCACATGACTAAAAAATGCAGAGTGTTTTCTGCCTATATTAAAGAAGTGGATGAA
AAGCCATCCAGTACACCGTGGGGCAAGATGCCTTTTGGCCAGCTGATGTCAGAGTTTGGGGGCAGTGCCACAGGTGGCTG
GGTCCATGGGGTCGGATTCTCCACCAGTGGAAGCCATCTGGCCTGGGTCAGTCATGACAGCACCGTTTCTGTTGCTGATG
CTTCAAAAAGTGTCCAGGTCTCAACTCTGAAAACAGAGTTCCTACCACTGCTGAGGGTGTCATTTGTCTTGGAGAATAGC
GTTGTGGCTGCTGGTCATGACTGCTGCCCAGGGCTCTTTAACTACGATGACCAAGGCTGCTTGACCTTTGTATCTAAGTT
AGACATTCCAAAATAAAGCATCCAGCGTAACATGTCTGCCATGGAACGTTTCCACAACATGGACAAGATGGCCACGACCG
AGGACCATAATCCAGCCCTGGAGATGCTGCACCAGAATAGCATCACTCAAGTGACTATG

ORF - retro_ogar_1547 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.46 %
Parental protein coverage: 55.95 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalESENDWWVSKHIKKPIRSTVLSLDWHPNNVLLAAGSCD-FKCRVFSAYIKEVDEKPASTPWGSKMPFGQL
ESENDWWVSKHIKKPIRST.LSLDWHPNNV.LAAGS.D..KCRVFSAYIKEVDEKP.STPWG.KMPFGQL
RetrocopyESENDWWVSKHIKKPIRSTGLSLDWHPNNVFLAAGSHD>KKCRVFSAYIKEVDEKPSSTPWG-KMPFGQL
ParentalMSEFGGSGTGGWVHGVSFSASGSRLAWVSHDSTVSVADASKSVQVSTLKTEFLPLLSVSFVSENSVVAAG
MSEFGGS.TGGWVHGV.FS.SGS.LAWVSHDSTVSVADASKSVQVSTLKTEFLPLL.VSFV.ENSVVAAG
RetrocopyMSEFGGSATGGWVHGVGFSTSGSHLAWVSHDSTVSVADASKSVQVSTLKTEFLPLLRVSFVLENSVVAAG
ParentalHDCCPMLFNYDDRGCLTFVSKLDIPKQSIQRNMSAMERFRNMDKRATIEDRNTALETLHQNSITQVSI
HDCCP.LFNYDD.GCLTFVSKLDIPK.SIQRNMSAMERF.NMDK.AT.ED.N.ALE.LHQNSITQV..
RetrocopyHDCCPGLFNYDDQGCLTFVSKLDIPK*SIQRNMSAMERFHNMDKMATTEDHNPALEMLHQNSITQVTM

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_1547 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 22 parental genes, and 56 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000063221 retrocopy
Bos taurus ENSBTAG000000042421 retrocopy
Callithrix jacchus ENSCJAG000000158593 retrocopies
Cavia porcellus ENSCPOG000000017772 retrocopies
Dipodomys ordii ENSDORG000000160591 retrocopy
Equus caballus ENSECAG000000164671 retrocopy
Homo sapiens ENSG000002416852 retrocopies
Loxodonta africana ENSLAFG000000140241 retrocopy
Macropus eugenii ENSMEUG000000056098 retrocopies
Myotis lucifugus ENSMLUG000000109121 retrocopy
Macaca mulatta ENSMMUG000000193422 retrocopies
Monodelphis domestica ENSMODG000000013039 retrocopies
Mus musculus ENSMUSG000000296211 retrocopy
Nomascus leucogenys ENSNLEG000000108522 retrocopies
Oryctolagus cuniculus ENSOCUG000000039441 retrocopy
Otolemur garnettii ENSOGAG00000010870 6 retrocopies
Otolemur garnettii ENSOGAG000000108722 retrocopies
Pongo abelii ENSPPYG000000258164 retrocopies
Pan troglodytes ENSPTRG000000338192 retrocopies
Sarcophilus harrisii ENSSHAG000000106732 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000016601 retrocopy
Tupaia belangeri ENSTBEG000000113813 retrocopies



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