RetrogeneDB ID:

retro_nleu_929

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397276.1:4942588..4943547(-)
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:ENSNLEG00000010041
Aliases:None
Description:Adenosylhomocysteinase [Source:UniProtKB/TrEMBL;Acc:G1RG91]


Retrocopy-Parental alignment summary:






>retro_nleu_929
ATGTCTGACAAACTGCCCTACACAGTCACTGACATCAGCCTGGATGCCTAGAGACACAAGGCCCTAGACATTGTGGAGGC
TGACATGGTGGGCCTGATGTACATGAGGGAGTTGTTCCTGGCTCCAAGCCACTGAAAGGCACTCACATCACTAGCTGCCT
GCAAATGACAGTGGAGACTATTGTCCTCATTGAAACCCTCATTACCTCAAGTGCTGAGATGCAGTGGTCCAGCTGCAACA
TCTTCTCCACCTAGAACCATGTGGCAGCTGCCATTGCCAAGGCTGGCATTCCAGTGTGCGCCTGGAAGGGTGAAAGAGAT
GACAAGTACCTGTGGTGCATCAAGCAGATACTGTATTTCAAAGATAGGCCCCTCAACATGATTCTGGATGATGCTGGTGA
CCTCAACCAACCACACTTACACCAGGTACCCACAGCTTCTGTCAATCAGCTGAGGCATCTTTCAGGAGACCATGACTGGG
TCCACAGGATGATGGCCAATGGGATGATGAGGGCACCTACCATCAATGTCAATGACTCCATCACCAAGAGCAAGTCTGAC
AACCTCTATGTCTGCCAGCAGTCCCACATAAATAACATCAAGTGGGCCACAGAAGTGATGATTGCTGGCAAGGTAGCGGT
GGTGGTGGGCTGTGGTGATGTGGGCAATGGTTGTGTCCAGGCCCTGAAGGGTTTTGGGGCTTGCATAATCATCACCAAAA
TTGACCCACTCAACACACTGCAGGCTGCTATTGAGGGCTATGAGGTGACTACCATGGAGGAGGCCTGCCAGGATGGCAAC
ATCTTTGACACCACCACAGACTTTTTCAATATCATCCTTGGCCGGCACATTGAGCAGATGAAGGATGTTGCCATTGTGTG
TAACACTGGACCCTTTGACATGGAAATCAATGTCAAGTGGCTCAACGAGAATGCTGTGGAGAAGGTGAACATCAAGCCC

ORF - retro_nleu_929 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.17 %
Parental protein coverage: 74.94 %
Number of stop codons detected: 3
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalMSDKLPYKVADIGLAAWGRKALDIAENEMPGLMRMRERYSA-SKPLKGARIAGCLHMTVETAVLIETLVA
MSDKLPY.V.DI.L.A...KALDI.E..M.GLM.MRE...A.SKPLKG..I..CL.MTVET.VLIETL..
RetrocopyMSDKLPYTVTDISLDA*RHKALDIVEADMVGLMYMRELFLA<SKPLKGTHITSCLQMTVETIVLIETLIT
ParentalLGAEVQWSSCNIFSTQDHAAAAIAKAGIPVYAWKGETDEEYLWCIEQTLYFKDGPLNMILDDGGDL-TNL
..AE.QWSSCNIFST..H.AAAIAKAGIPV.AWKGE.D..YLWCI.Q.LYFKD.PLNMILDD.GDL.TN.
RetrocopySSAEMQWSSCNIFST*NHVAAAIAKAGIPVCAWKGERDDKYLWCIKQILYFKDRPLNMILDDAGDL>TNH
ParentalIHTKYPQLLPGIRGISEETTTG-VHNLYKMMANGILRVPAINVNDSVTKSKFDNLYGCRESLIDGIKRAT
..T.YPQLL....GI..ET.TG.VH....MMANG..R.P.INVNDS.TKSK.DNLY.C..S.I..IK.AT
RetrocopyTYTRYPQLLSIS*GIFQETMTG<VH---RMMANGMMRAPTINVNDSITKSKSDNLYVCQQSHINNIKWAT
ParentalDVMIAGKVAVVAGYGDVGKGCAQALRGFGARVIITEIDPINALQAAMEGYEVTTMDEACQEGNIFVTTTG
.VMIAGKVAVV.G.GDVG.GC.QAL.GFGA..IIT.IDP.N.LQAA.EGYEVTTM.EACQ.GNIF.TTT.
RetrocopyEVMIAGKVAVVVGCGDVGNGCVQALKGFGACIIITKIDPLNTLQAAIEGYEVTTMEEACQDGNIFDTTTD
ParentalCVDIILGRHFEQMKDDAIVCNIGHFDVEIDVKWLSENAVEKVNIKP
...IILGRH.EQMKD.AIVCN.G.FD.EI.VKWL.ENAVEKVNIKP
RetrocopyFFNIILGRHIEQMKDVAIVCNTGPFDMEINVKWLNENAVEKVNIKP

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_929 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 18 parental genes, and 61 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000181011 retrocopy
retro_btau_1140,
Canis familiaris ENSCAFG000000075042 retrocopies
retro_cfam_1486, retro_cfam_552,
Callithrix jacchus ENSCJAG000000183037 retrocopies
retro_cjac_1028, retro_cjac_1248, retro_cjac_1806, retro_cjac_2132, retro_cjac_2839, retro_cjac_3287, retro_cjac_480,
Echinops telfairi ENSETEG000000025761 retrocopy
retro_etel_444,
Homo sapiens ENSG000001014446 retrocopies
retro_hsap_1496, retro_hsap_2325, retro_hsap_2365, retro_hsap_4213, retro_hsap_571, retro_hsap_803,
Gorilla gorilla ENSGGOG000000146945 retrocopies
retro_ggor_1148, retro_ggor_1795, retro_ggor_2822, retro_ggor_3087, retro_ggor_511,
Monodelphis domestica ENSMODG000000027531 retrocopy
retro_mdom_1974,
Mus musculus ENSMUSG000000275971 retrocopy
retro_mmus_197,
Nomascus leucogenys ENSNLEG00000010041 4 retrocopies
retro_nleu_1717, retro_nleu_2785, retro_nleu_40, retro_nleu_929 ,
Oryctolagus cuniculus ENSOCUG000000085921 retrocopy
retro_ocun_1886,
Otolemur garnettii ENSOGAG000000167873 retrocopies
retro_ogar_3223, retro_ogar_3401, retro_ogar_3402,
Pongo abelii ENSPPYG000000109359 retrocopies
retro_pabe_1247, retro_pabe_1978, retro_pabe_2108, retro_pabe_2189, retro_pabe_3446, retro_pabe_647, retro_pabe_658, retro_pabe_665, retro_pabe_718,
Pan troglodytes ENSPTRG000000134147 retrocopies
retro_ptro_1015, retro_ptro_1698, retro_ptro_1730, retro_ptro_2860, retro_ptro_3011, retro_ptro_559, retro_ptro_771,
Rattus norvegicus ENSRNOG000000177777 retrocopies
retro_rnor_1142, retro_rnor_1820, retro_rnor_1903, retro_rnor_2120, retro_rnor_569, retro_rnor_647, retro_rnor_839,
Sus scrofa ENSSSCG000000072781 retrocopy
retro_sscr_119,
Tarsius syrichta ENSTSYG000000071633 retrocopies
retro_tsyr_1178, retro_tsyr_1529, retro_tsyr_1582,
Tursiops truncatus ENSTTRG000000036321 retrocopy
retro_ttru_1666,
Xenopus tropicalis ENSXETG000000194861 retrocopy
retro_xtro_62,


Copyright © RetrogeneDB 2014-2017