RetrogeneDB ID:

retro_nleu_2006

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397322.1:3405280..3405766(+)
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:ENSNLEG00000004537
Aliases:None
Description:60S ribosomal protein L18 [Source:UniProtKB/TrEMBL;Acc:G1QX20]


Retrocopy-Parental alignment summary:






>retro_nleu_2006
TTGTTAGTCAAGCTGTGCAGGTTACCGGGCAGACGAACTAACTCCACATTCAACCAGGTTGTGCTGAAGAGGTTGTTTAT
GCGTCGCACCAACCGGCCACCTCTGTCCCTTTCCCGGATGATCCGGAAGATTAAGCTTCCTGGCTGGGAAAACAAAACGG
CCGTGGTTATGGGGACGCTTAAAGGATGACGCGCGGGTTCAGGAGGTGCCCAAACTTAAGGTTTGTGCGCTGCCCGTGAC
CAGCCGGCCCGCAGCGGCATCCTCAGGGTGGGGGGCAAGATCCTGACTTTCGATCAGCTGGCCCTGGACTCCCCCGAGGG
CGGCGGGCCCGTCCTGCTCTCTGGTCTTCGCAAGGGCCGACAGGTGTACCGGCATTTCGGCAAGGCCCTGGGAACCCCAC
ACAGCCACACCAAACCCTATTTCCGCTCCAGGGACCAGAAGTTCGAGCGCTCCAGAGGCCGACGGGCCAGCCGAGGCTAC
AAAAAC

ORF - retro_nleu_2006 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.1 %
Parental protein coverage: 86.17 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalLLVKLYRFLARRTNSTFNQVVLKRLFMSRTNRPPLSLSRMVIGLLLPGRENKTAVVVGTIT-DDVRVQEV
LLVKL.R...RRTNSTFNQVVLKRLFM.RTNRPPLSLSRM.....LPG.ENKTAVV.GT...DD.RVQEV
RetrocopyLLVKLCRLPGRRTNSTFNQVVLKRLFMRRTNRPPLSLSRMIRKIKLPGWENKTAVVMGTLK>DDARVQEV
ParentalPKLKVCALRVTSR-ARSRILRAGGKILTFDQLALDSPKGCGTVLLSGPRKGREVYRHFGKAPGTPHSHTK
PKLKVCAL.VTSR.ARS.ILR.GGKILTFDQLALDSP.G.G.VLLSG.RKGR.VYRHFGKA.GTPHSHTK
RetrocopyPKLKVCALPVTSR<ARSGILRVGGKILTFDQLALDSPEGGGPVLLSGLRKGRQVYRHFGKALGTPHSHTK
ParentalPYVRSKGRKFERARGRRASRGYKN
PY.RS...KFER.RGRRASRGYKN
RetrocopyPYFRSRDQKFERSRGRRASRGYKN

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_2006 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 31 parental genes, and 195 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000148723 retrocopies
Bos taurus ENSBTAG000000153881 retrocopy
Canis familiaris ENSCAFG000000039677 retrocopies
Choloepus hoffmanni ENSCHOG000000091406 retrocopies
Callithrix jacchus ENSCJAG000000003774 retrocopies
Cavia porcellus ENSCPOG000000263344 retrocopies
Equus caballus ENSECAG000000219273 retrocopies
Erinaceus europaeus ENSEEUG000000158725 retrocopies
Echinops telfairi ENSETEG000000131576 retrocopies
Felis catus ENSFCAG000000086524 retrocopies
Homo sapiens ENSG0000006317711 retrocopies
Gorilla gorilla ENSGGOG000000248787 retrocopies
Loxodonta africana ENSLAFG000000312671 retrocopy
Macropus eugenii ENSMEUG000000006401 retrocopy
Myotis lucifugus ENSMLUG0000000928612 retrocopies
Macaca mulatta ENSMMUG000000221583 retrocopies
Monodelphis domestica ENSMODG000000140991 retrocopy
Mustela putorius furoENSMPUG000000038914 retrocopies
Mus musculus ENSMUSG0000005907011 retrocopies
Nomascus leucogenys ENSNLEG00000004537 11 retrocopies
Otolemur garnettii ENSOGAG0000000356216 retrocopies
Oreochromis niloticus ENSONIG000000065391 retrocopy
Pongo abelii ENSPPYG000000102066 retrocopies
Pan troglodytes ENSPTRG0000001124510 retrocopies
Pteropus vampyrus ENSPVAG0000000952410 retrocopies
Rattus norvegicus ENSRNOG0000002103514 retrocopies
Sarcophilus harrisii ENSSHAG000000065642 retrocopies
Sus scrofa ENSSSCG000000259285 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000122585 retrocopies
Tupaia belangeri ENSTBEG0000000159418 retrocopies
Tursiops truncatus ENSTTRG000000081873 retrocopies



Copyright © RetrogeneDB 2014-2017