RetrogeneDB ID:

retro_nleu_2209

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397334.1:6796167..6796782(-)
Located in intron of:ENSNLEG00000001127
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RBPMS2
Ensembl ID:ENSNLEG00000012505
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_2209
CTGCAGCGGGAGGGCGAGCGCGGTGGCAGCACCCTCACTGGCTCCAGCGCGGGTTCTGGGGGCATCCTGGAGGAGGAGGC
CCGGACATTATCAGCGGCCTCCCTATGGACATTAAACCCAGAGAATCCTACTTGATCTTCCGGCCGTTCAAGGAGTATGA
AGAGTCCCTGATCGAGCTCACCGCGAAACAGCCTGTTTGTTTTGTGATCTTTGACAGCCGGGCAGGAGCAGAAGAGGCCA
AAAATGCGCTGAACGATATTCGCTTAGATACCGAAAACCCACAGATCATGAGGCTAGCGTTTGCCAAAGCCAACACCAAC
ATGGCCAAAAGCAAGCTAATGGCAACTCCAAATCCCACCAACGTGCACCCCACCTAGGAGTACACTTACTTCATCGCTCG
GGACCCCTATGACCTGATGGGGGCTGCTGTGATCCCTGCATCCCCAGAGGCCTGGGCCCTTCCGCTTTGTACACCACAGA
GCTGACCCCAGCCATCACCCATGATGCGTTCACCTACCCAGCTGCCACTACCGTTGCCGCCGCTCTCCATGCCAGGTGCG
CTGGTTCCCTTCCTCTGACACCACCCAGCAAGGATGGAAGTACCGTCAGTTCTGT

ORF - retro_nleu_2209 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 76.19 %
Parental protein coverage: 99.04 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalLKPDGEHGGSTGTGSGAGSGGALEEEVRTLF-VSGLPVDIKPRELYLLFRPFKGYEGSLIKLTARQPVGF
L...GE.GGST.TGS.AGS.G...EE.......SGLP.DIKPRE.YL.FRPFK.YE.SLI.LTA.QPV.F
RetrocopyLQREGERGGSTLTGSSAGS-GGILEEEARTL<ISGLPMDIKPRESYLIFRPFKEYEESLIELTAKQPVCF
ParentalVIFDSRAGAEAAKNALNGIRFDPENPQTLRLEFAKANTKMAKSKLMATPNPSNVHPA-LGAHFIARDPYD
VIFDSRAGAE.AKNALN.IR.D.ENPQ..RL.FAKANT.MAKSKLMATPNP.NVHP......FIARDPYD
RetrocopyVIFDSRAGAEEAKNALNDIRLDTENPQIMRLAFAKANTNMAKSKLMATPNPTNVHPT*EYTYFIARDPYD
ParentalLMGAALIPASPEAWA-PYPLYTTELTPAISHAAFTYPAATAAAAALHA-QVRWYPSSDTTQQGWKYRQFC
LMGAA.IPASPEAWA.P..LYTTELTPAI.H.AFTYPAAT..AAALHA.QVRW.PSSDTTQQGWKYRQFC
RetrocopyLMGAAVIPASPEAWA<PSALYTTELTPAITHDAFTYPAATTVAAALHA<QVRWFPSSDTTQQGWKYRQFC

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_2209 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 17 parental genes, and 38 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000110371 retrocopy
Callithrix jacchus ENSCJAG000000052002 retrocopies
Dipodomys ordii ENSDORG000000040251 retrocopy
Homo sapiens ENSG000001668312 retrocopies
Gorilla gorilla ENSGGOG000000089841 retrocopy
Loxodonta africana ENSLAFG000000187256 retrocopies
Macaca mulatta ENSMMUG000000132701 retrocopy
Monodelphis domestica ENSMODG000000104871 retrocopy
Mus musculus ENSMUSG000000323879 retrocopies
Nomascus leucogenys ENSNLEG00000012505 1 retrocopy
retro_nleu_2209 ,
Otolemur garnettii ENSOGAG000000260171 retrocopy
Pongo abelii ENSPPYG000000065531 retrocopy
Pan troglodytes ENSPTRG000000071652 retrocopies
Sus scrofa ENSSSCG000000045491 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000100552 retrocopies
Tarsius syrichta ENSTSYG000000089963 retrocopies
Tursiops truncatus ENSTTRG000000118403 retrocopies



Copyright © RetrogeneDB 2014-2017