RetrogeneDB ID:

retro_nleu_2651

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397388.1:4548508..4549546(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:WBP11
Ensembl ID:ENSNLEG00000003926
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_2651
AGAGCTGCGGTTTTAAAAATGAAGGATCCCAAACAGATTATCCAGGACATGGAGAAATTGGATGAAATGGAGTTTAACCA
CTGCAACAGCCACAATTAAATGAGAAAGTACTGAAAAACAAGCAAAAAAACTGCGTGAAATCTTTGAACATATTCTATAA
CTATGAAAAAGAAAATCCAGATATTTACAAGGACTTGAGAAAACTAGAAGTAGAGTATGAACAGAAGAGGGCTCAACTTA
GGCAATATTTTGATGCTGTCGAGAATGCTCAGCATGCGAAGTGGAAAGCATTCCTTTGCCAGATGTGCCACGTGCTCCTT
CCAACATTTTGATTCAGGACATTCCACTTCCTGGTCCCAGCCACTCTCCATCCTTAGGAAAACCTCAGCCTATGGACCTC
CAACTCAGGCAGTTTTTATCCTTCCTCTTCTTGGGCATAATGTTCCACGTTTGCCCCCTGGCAGAAAATCTCCTGGCCCT
CCCCTGGCCCACCTCCTCCTCAAGTCTTGCACATGTATGGCCGTAAAGTAGGTTTTGCCCTAGATCTTCCCCCTCATAGG
CAAGATGAAGAAGACATGTTATATAATCCTGAACTTGCCCAGCAAGGTCATGGTGATGATGTTTCTAGCGCCAGTGAAGA
TGATGGCCCTTCTGAAAACAAGGACCAACATAAGCATGGTAACGATACTGATGAAGGTGACACCAACATCAGATGGAGAA
AGTGGGGGGATGAATTGTGCACTGTGATGATGGTGAGAGAGACAGCAATGAAGAAAAGAACTCAGGTCTGAGTGTACGGT
TTGCAGATATGCCTGGAAAATCAAGGAAGAAAAAGAAGAACATGAAGGAGTTAACTCCTCTTCAAGCCATGATGCTTCCA
TGGCAGGTCAAGAAGTCCCTGAGGAGGGACCAGAAGTAGAGGAATTTTCAGAGGACGATGATGAAGATGATTCTGATGAC
TCTGAAGCAGGTAAACAATCACAAAAACAGCATAAAGAAGAGTCTCATTCTGATGGCACATCCACCGCTTCTTCACAG

ORF - retro_nleu_2651 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.05 %
Parental protein coverage: 54.45 %
Number of stop codons detected: 0
Number of frameshifts detected 8


Retrocopy - Parental Gene Alignment:

ParentalRAAVLKMKDPKQIIRDMEKLDEMEFN-PVQQPQLNEKVLKDKRKKLRETFERILRLYEKENPDIYKELRK
RAAVLKMKDPKQII.DMEKLDEMEFN.P.QQPQLNEKVLK.K.K........I...YEKENPDIYK.LRK
RetrocopyRAAVLKMKDPKQIIQDMEKLDEMEFN<PLQQPQLNEKVLKNKQKNCVKSLN-IFYNYEKENPDIYKDLRK
ParentalLEVEYEQKRAQLSQYFDAVKNAQHV-EVESIPLPDMPHAPSNILIQDIPLPG-AQPPSILKKTSAYGPPT
LEVEYEQKRAQL.QYFDAV.NAQH..EVESIPLPD.P.APSNILIQDIPLPG..QP.SIL.KTSAYGPPT
RetrocopyLEVEYEQKRAQLRQYFDAVENAQHA<EVESIPLPDVPRAPSNILIQDIPLPG<SQPLSILRKTSAYGPPT
ParentalRAVSILPLLGHGVPRLPPGRKPPGPP-PGPPPPQVVQMYGRKVGFALDLPPRRRDE-DMLYSPELAQRGH
.AV.ILPLLGH.VPRLPPGRK.PGPP.PGPPPPQV..MYGRKVGFALDLPP.R.DE.DMLY.PELAQ.GH
RetrocopyQAVFILPLLGHNVPRLPPGRKSPGPP<PGPPPPQVLHMYGRKVGFALDLPPHRQDEEDMLYNPELAQQGH
ParentalDDDVSSTSEDDGYPEDMDQDKHDDSTDDSD-TDKSDGESDG-DEF-VHRDDGERDNNEEKKSGLSVRFAD
.DDVSS.SE.D..P.............D...T..SDGES.G.DE..VH.DDGERD.NEEK.SGLSVRFAD
RetrocopyGDDVSSASE-DDGPSENKDQHKHGNDTDEG>TPTSDGESGG<DEL<VHCDDGERDSNEEKNSGLSVRFAD
ParentalMPGKSRKKKKNMKELTPLQAMML-RMAGQEIPEEGREVEEFSEDDDEDDSDDSEAEKQSQKQHKEESHSD
MPGKSRKKKKNMKELTPLQAMML..MAGQE.PEEG.EVEEFSEDDDEDDSDDSEA.KQSQKQHKEESHSD
RetrocopyMPGKSRKKKKNMKELTPLQAMML<SMAGQEVPEEGPEVEEFSEDDDEDDSDDSEAGKQSQKQHKEESHSD
ParentalGTSTVSSQ
GTST.SSQ
RetrocopyGTSTASSQ

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






RNA-Seq - click to see more details

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Nomascus leucogenys was not studied using ChIP-Seq data.

EST - click to see more details

Nomascus leucogenys was not studied using EST data.

TSS - click to see more details

Nomascus leucogenys was not studied using FANTOM5 data.

Lab - click to see more details

retro_nleu_2651 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 22 parental genes, and 34 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000147591 retrocopy
retro_btau_20,
Canis familiaris ENSCAFG000000129262 retrocopies
retro_cfam_1369, retro_cfam_1911,
Callithrix jacchus ENSCJAG000000216111 retrocopy
retro_cjac_1737,
Homo sapiens ENSG000000844632 retrocopies
retro_hsap_1878, retro_hsap_4719,
Gorilla gorilla ENSGGOG000000044483 retrocopies
retro_ggor_1375, retro_ggor_1711, retro_ggor_2932,
Macropus eugenii ENSMEUG000000139711 retrocopy
retro_meug_1952,
Myotis lucifugus ENSMLUG000000152161 retrocopy
retro_mluc_1074,
Macaca mulatta ENSMMUG000000192991 retrocopy
retro_mmul_1329,
Monodelphis domestica ENSMODG000000179491 retrocopy
retro_mdom_143,
Mustela putorius furoENSMPUG000000116191 retrocopy
retro_mputfur_280,
Mus musculus ENSMUSG000000302161 retrocopy
retro_mmus_2740,
Nomascus leucogenys ENSNLEG00000003926 1 retrocopy
retro_nleu_2651 ,
Oryctolagus cuniculus ENSOCUG000000171771 retrocopy
retro_ocun_974,
Otolemur garnettii ENSOGAG000000105181 retrocopy
retro_ogar_207,
Ochotona princeps ENSOPRG000000150083 retrocopies
retro_opri_107, retro_opri_1159, retro_opri_678,
Pongo abelii ENSPPYG000000043233 retrocopies
retro_pabe_1558, retro_pabe_2099, retro_pabe_3663,
Pan troglodytes ENSPTRG000000047243 retrocopies
retro_ptro_1260, retro_ptro_1637, retro_ptro_3136,
Rattus norvegicus ENSRNOG000000055053 retrocopies
retro_rnor_1287, retro_rnor_2726, retro_rnor_741,
Rattus norvegicus ENSRNOG000000495931 retrocopy
retro_rnor_740,
Sorex araneus ENSSARG000000070851 retrocopy
retro_sara_753,
Sarcophilus harrisii ENSSHAG000000166491 retrocopy
retro_shar_81,
Tupaia belangeri ENSTBEG000000033941 retrocopy
retro_tbel_2213,


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