RetrogeneDB ID:

retro_ogar_1934

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873575.1:10418040..10418936(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOGAG00000005478
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ogar_1934
GTGACTGCAACAAGGGAGAACACAGCTTACACTGTGGAATGTCTGAGGGGTGATGTTGATATTCTAATAGAATTCCTGCT
TCGTGTCACCAACAGCACCAGAATGTTGTGTTGGGAAGTAGCGGACCTTCAGTGTTAACTAAGGACTGACAAAGCTATAG
TTTTTCAGATTCCACAGGCTCAAGTCATTGAAAATTTGCATGCTGCAGCTCACCAAATGCCTTGGCTTATTCCCTATATT
GTCCTGACTATAGGATTGGAAAAGTGACATCAGAGGAGTTACATTACCATGTTCAGAACCATTTTACAAGTGCAAGAATG
GCTTTAGTTGGACTTGGTGTGAGTAATCCTGTGCTTAAGCACATTGCTGAACAGTTTCTCAACATAATGGGAGGGGTTGG
TTTAACTGGTGCTAAGGCCAGATACCCTGGAAGTGAAATTCCAGAGCAGAAGGGAAACAGCTTGTCCACGCTGCTCTTGT
AACAGAAAGTGCTGCCACAGGAAGTGCAAAAGCAAATGCATTTAGTCTTCTTCAGCATGTGCTTGGTGCTGGACCTCCTT
GTCAAGAGGGGCAGCAATGCCACCAGCCTTCTATACCAGGCTGTTGCCAAGGGAATTCACCAGCCATTTGACATTTCTGC
TTTTAATGCCAGTTACTCAGATTCTGGACTTTTCAGGATTTATATAATCTCCCAGGCTGCAGCTGCTGGAGATGTTATCA
AGTCTGCCTATAACCAGATCAAAACAATTGCTCAAGGAAACCTTTCCAATGCAGATGTCCAAGCTGCCGGAAACAAGCTG
AAAGCTGGATGCCTAATGTCAGTGGAGTCTTCTGAGGGTTTCCTGGATGAAGTTGGATCCCAGGAACTAGCTACTGGTTT
TTACGGGCCACCATCC

ORF - retro_ogar_1934 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.12 %
Parental protein coverage: 66.0 %
Number of stop codons detected: 1
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalVTATRENIAYTVECLRGDVDILMEFLLNVTTAPEFRRWEVADLQSQLRVDKAVAFQNPQAQVIENLHAAA
VTATREN.AYTVECLRGDVDIL.EFLL.VT.......WEVADLQ..LR.DKA..FQ.PQAQVIENLHAAA
RetrocopyVTATRENTAYTVECLRGDVDILIEFLLRVTNSTRMLCWEVADLQC*LRTDKAIVFQIPQAQVIENLHAAA
ParentalYR-NALANSLYCPDYRIGKVTAEELHYYVQNHFTSARMALVGLGVSHPVLKQIAEQFLNMRGGLGLTGAK
...NALA.SLYCPDYRIGKVT.EELHY.VQNHFTSARMALVGLGVS.PVLK.IAEQFLN..GG.GLTGAK
RetrocopyHQ<NALAYSLYCPDYRIGKVTSEELHYHVQNHFTSARMALVGLGVSNPVLKHIAEQFLNIMGGVGLTGAK
ParentalARYRGGEIREQNGNSL-VHAALVAEGAASGSAEANAFSLLQHVLGAGPH-VKRGSNTTSLLYQAVAKGVH
ARY.G.EI.EQ.GNSL.VHAALV.E.AA.GSA.ANAFSLLQHVLGAGP..VKRGSN.TSLLYQAVAKG.H
RetrocopyARYPGSEIPEQKGNSL<VHAALVTESAATGSAKANAFSLLQHVLGAGPP>VKRGSNATSLLYQAVAKGIH
ParentalQPFDVSAFNASYSDSGLFGIYTISQAASAGDVIKAAYNQIKTIAQGSLSKADVQAARNKLKAGYLMSVES
QPFD.SAFNASYSDSGLF.IY.ISQAA.AGDVIK.AYNQIKTIAQG.LS.ADVQAA.NKLKAG.LMSVES
RetrocopyQPFDISAFNASYSDSGLFRIYIISQAAAAGDVIKSAYNQIKTIAQGNLSNADVQAAGNKLKAGCLMSVES
ParentalSEGFLDEVGSQALVAGSYIPPS
SEGFLDEVGSQ.L..G.Y.PPS
RetrocopySEGFLDEVGSQELATGFYGPPS

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






RNA-Seq - click to see more details

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Otolemur garnettii was not studied using ChIP-Seq data.

EST - click to see more details

Otolemur garnettii was not studied using EST data.

TSS - click to see more details

Otolemur garnettii was not studied using FANTOM5 data.

Lab - click to see more details

retro_ogar_1934 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 19 parental genes, and 26 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000216512 retrocopies
retro_btau_1008, retro_btau_1668,
Canis familiaris ENSCAFG000000177561 retrocopy
retro_cfam_2075,
Callithrix jacchus ENSCJAG000000091161 retrocopy
retro_cjac_222,
Echinops telfairi ENSETEG000000010841 retrocopy
retro_etel_2087,
Homo sapiens ENSG000001407401 retrocopy
retro_hsap_2785,
Gorilla gorilla ENSGGOG000000153791 retrocopy
retro_ggor_1941,
Myotis lucifugus ENSMLUG000000033452 retrocopies
retro_mluc_1391, retro_mluc_770,
Macaca mulatta ENSMMUG000000182872 retrocopies
retro_mmul_1442, retro_mmul_683,
Monodelphis domestica ENSMODG000000076451 retrocopy
retro_mdom_327,
Mustela putorius furoENSMPUG000000168491 retrocopy
retro_mputfur_1042,
Nomascus leucogenys ENSNLEG000000121851 retrocopy
retro_nleu_685,
Oryctolagus cuniculus ENSOCUG000000038912 retrocopies
retro_ocun_604, retro_ocun_739,
Otolemur garnettii ENSOGAG00000005478 4 retrocopies
retro_ogar_1113, retro_ogar_112, retro_ogar_1934 , retro_ogar_82,
Ochotona princeps ENSOPRG000000004191 retrocopy
retro_opri_455,
Pongo abelii ENSPPYG000000071741 retrocopy
retro_pabe_2232,
Pan troglodytes ENSPTRG000000078711 retrocopy
retro_ptro_1886,
Sorex araneus ENSSARG000000106701 retrocopy
retro_sara_231,
Tupaia belangeri ENSTBEG000000107851 retrocopy
retro_tbel_3988,
Vicugna pacos ENSVPAG000000109141 retrocopy
retro_vpac_640,


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