RetrogeneDB ID:

retro_ogar_1979

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873578.1:6192761..6193281(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS6
Ensembl ID:ENSOGAG00000016254
Aliases:None
Description:ribosomal protein S6 [Source:HGNC Symbol;Acc:10429]


Retrocopy-Parental alignment summary:






>retro_ogar_1979
GTCCACCTGCTACTGAGTAAGGGGCATTTCTGTTACAGACCAAGGAAAATCGAAGAAAGGAAGTGCTGTTTAGGATTACA
TTGTGGATGCCATTCTGAGGGTTCTCAACTTGGTTATAGTAATGAAAGGAGAGAAGGATACCCCTGGCCTGATGGATACT
ACGGTATCTTGTTGTTTGGGGCCCAAAAGAGCTAGCAGGATCCTCAGACTTTTCGGTCTGTCTCAAGAAGATGATGTTCA
CCAGTATGTTGTGATAAAACCCTTAAATAAAGAAGGTGAGAAACCTAGGACCAAAGCACCAAAGGTTCAGCATCTTGTGA
TTCCATGTGTCCTGCAACATAAACACAGGCATATTGATCTGAGGAAGCAGTGTACTAAGGAAAATAAGGAAAAGGCTGTG
GAATATGCTAAACGATTGGCCAAGAGAATGAGGGAGGCCAAAGAAAACCGTCAGAAATGGATTACCAAGAGGTGCGGGCT
GTCCTCTCCAAAAGCTTCCACTTCTAAGTCTGAATACAGT

ORF - retro_ogar_1979 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.59 %
Parental protein coverage: 70.28 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalVRLLLSKGHSCYRPRRTGERKRKSVRGC-IVDANLSVLNLVIVKKGEKDIPGLTDTTVPRRLGPKRASRI
V.LLLSKGH.CYRPR...E..RK...G..IVDA.L.VLNLVIV.KGEKD.PGL.DTTV...LGPKRASRI
RetrocopyVHLLLSKGHFCYRPRKIEE--RKCCLGL>IVDAILRVLNLVIVMKGEKDTPGLMDTTVSCCLGPKRASRI
ParentalRKLFNLSKEDDVRQYVVRKPLNKEGKKPRTKAPKIQRLVTPRVLQHKRRRIALKKQRTKKNKEEAAEYAK
..LF.LS.EDDV.QYVV.KPLNKEG.KPRTKAPK.Q.LV.P.VLQHK.R.I.L.KQ.TK.NKE.A.EYAK
RetrocopyLRLFGLSQEDDVHQYVVIKPLNKEGEKPRTKAPKVQHLVIPCVLQHKHRHIDLRKQCTKENKEKAVEYAK
ParentalLLAKRMKEAKEKRQEQIAKRRRLSSLRASTSKSESS
.LAKRM.EAKE.RQ..I.KR..LSS..ASTSKSE.S
RetrocopyRLAKRMREAKENRQKWITKRCGLSSPKASTSKSEYS

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_1979 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 13 parental genes, and 107 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000176341 retrocopy
Choloepus hoffmanni ENSCHOG0000000462215 retrocopies
Cavia porcellus ENSCPOG000000037504 retrocopies
Dipodomys ordii ENSDORG000000120572 retrocopies
Ficedula albicollis ENSFALG000000030781 retrocopy
Loxodonta africana ENSLAFG000000107664 retrocopies
Myotis lucifugus ENSMLUG0000000758827 retrocopies
Monodelphis domestica ENSMODG000000040951 retrocopy
Nomascus leucogenys ENSNLEG0000001753214 retrocopies
Otolemur garnettii ENSOGAG00000016254 21 retrocopies
Ochotona princeps ENSOPRG000000122905 retrocopies
Sarcophilus harrisii ENSSHAG000000054861 retrocopy
Tursiops truncatus ENSTTRG0000000178711 retrocopies



Copyright © RetrogeneDB 2014-2017