RetrogeneDB ID:

retro_nleu_1173

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397283.1:16276049..16276645(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL13A
Ensembl ID:ENSNLEG00000005211
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_1173
CAGGTCCTGGTGCTTGATGGTTGAGGCCATCTCCTGGGCCGCCTGGCGGCCATCATGGCTAAGCAGGTACTGCTGGGCCG
GAAAGTAGTGGTCGTACGCTGTGAAGGCATTAACATTTCTGGCAATTTCTACAGAAACAAGTTGAAGTACCTGGCTTTCC
TCCGCAAGCAGATGAACACCAACCCTTCCGAGGCCCCTACCACTTCCGGGCTCCCAGCCGCATCTTCTGGCGGACCGTGG
GAGGCATGCTGCCCCACAAGACGAAGTGAGGCCAGGCCGCTCTGGATCGCCTCAAGGCGTTTGACTGCATCCCACCGCCC
TACGACAAGAAAAAGCGAATGGTGGTTCCTGCTGCCCTCAAGGTCGTGCGTCTGAAGCCTACAAGAAAGTTTGCCTATCT
GGGGCTCCTAGCTCACCAGGTTGGGTGGAAGTACCAGGCAGTGACAGCCACCCTGGAGGAGAAGAGGAAAGAGAAAGCCA
AGATCCACTACCGGAAGAGGAAAAAGGTCATGAGGCTACGGAAACAGGCCGAGAAGAACATGGAGAAGAAAACTGACAAA
TACACAGAGGTCCTCAAGACACACGGAGTCCTGGTC

ORF - retro_nleu_1173 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90.5 %
Parental protein coverage: 98.49 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalQVLVLDGRGHLLGRLAAIVAKQVLLGRKVVVVRCEGINISGNFYRNKLKYLAFLRKRMNTNPS-RGPYHF
QVLVLDG.GHLLGRLAAI.AKQVLLGRKVVVVRCEGINISGNFYRNKLKYLAFLRK.MNTNPS.RGPYHF
RetrocopyQVLVLDG*GHLLGRLAAIMAKQVLLGRKVVVVRCEGINISGNFYRNKLKYLAFLRKQMNTNPS<RGPYHF
ParentalRAPSRIFWRTVRGMLPHKTKRGQAALDRLKVFDGIPPPYDK--RMVVPAALKVVRLKPTR-FAYLGRLAH
RAPSRIFWRTV.GMLPHKTK.GQAALDRLK.FD.IPPPYDK..RMVVPAALKVVRLKPTR.FAYLG.LAH
RetrocopyRAPSRIFWRTVGGMLPHKTK*GQAALDRLKAFDCIPPPYDKKKRMVVPAALKVVRLKPTRKFAYLGLLAH
ParentalEVGWKYQAVTATLEEKRKEKAKIHYRKKKQLMRLRKQAEKNVEKKIDKYTEVLKTHGLLV
.VGWKYQAVTATLEEKRKEKAKIHYRK.K..MRLRKQAEKN.EKK.DKYTEVLKTHG.LV
RetrocopyQVGWKYQAVTATLEEKRKEKAKIHYRKRKKVMRLRKQAEKNMEKKTDKYTEVLKTHGVLV

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






Nomascus leucogenys was not studied using RNA-Seq expression data.
Nomascus leucogenys was not studied using ChIP-Seq data.
Nomascus leucogenys was not studied using EST data.
Nomascus leucogenys was not studied using FANTOM5 data.
retro_nleu_1173 was not experimentally validated.

Retrocopy orthology:
Nomascus leucogenys 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 14 parental genes, and 96 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000052963 retrocopies
Callithrix jacchus ENSCJAG0000000007216 retrocopies
Echinops telfairi ENSETEG000000170762 retrocopies
Loxodonta africana ENSLAFG000000162133 retrocopies
Microcebus murinus ENSMICG000000093186 retrocopies
Macaca mulatta ENSMMUG0000000755114 retrocopies
Mus musculus ENSMUSG000000741293 retrocopies
Nomascus leucogenys ENSNLEG00000005211 23 retrocopies
Otolemur garnettii ENSOGAG000000046257 retrocopies
Pongo abelii ENSPPYG000000102511 retrocopy
Pan troglodytes ENSPTRG000000112981 retrocopy
Pteropus vampyrus ENSPVAG000000109583 retrocopies
Rattus norvegicus ENSRNOG0000002061810 retrocopies
Sus scrofa ENSSSCG000000031664 retrocopies



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