RetrogeneDB ID:

retro_nleu_2478

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397359.1:3693442..3693897(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ATP5H
Ensembl ID:ENSNLEG00000000561
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_2478
ATAAAAACCACTGACTATGTAGCTTTTGCAGGGATCATACCCCAGAACCAAAAGGCCGTTTTTAATTCCCTGAAAACCTG
GAATGAGACCCTCACCTCCAAGTTGACTACTTTACCTGAGAATCCACCAGCTGTTGACTGGGCTTACTATAAGGCCCATG
TAGCCAAGGCAGGCTTGGTGGATGACTTTGAGAAGTTTAATGCCCTGAAGGTTCCTCTGCCAGAGGATAAATATACTGCC
CAGCTGGATGCTGAAGAAAAAGATGTGAAATCTGTGCTAAGTGGGTGTCTCTCTCAAACACCAGGATTGTAGAATATGAG
AAACAGAAGGAGAAAATGAGGAACTTAATTCCATTTGATCAGATGACCATTGAGGGCTTGAAAAAAGCTTTCCCAGAGAC
CAAATTAGACAAGAAAAAGTATCCCTAATGACCTCACCAACCAATCAAGAATTTA

ORF - retro_nleu_2478 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.35 %
Parental protein coverage: 95.65 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalLKTIDWVAFAEIIPQNQKAIASSLKSWNETLTSRLAALPENPPAIDWAYYKANVAKAGLVDDFEKKFNAL
.KT.D.VAFA.IIPQNQKA...SLK.WNETLTS.L..LPENPPA.DWAYYKA.VAKAGLVDDFEK.FNAL
RetrocopyIKTTDYVAFAGIIPQNQKAVFNSLKTWNETLTSKLTTLPENPPAVDWAYYKAHVAKAGLVDDFEK-FNAL
ParentalKVPVPEDKYTAQVDAEEKEDVKS-CAEWVSLSKAGIVEHEKEMEKMKNLIPFDQMTIEDLNEAFPETKLD
KVP.PEDKYTAQ.DAEEK.DVKS.CA.WVSLS...IVE.EK..EKM.NLIPFDQMTIE.L..AFPETKLD
RetrocopyKVPLPEDKYTAQLDAEEK-DVKS<CAKWVSLSNTRIVEYEKQKEKMRNLIPFDQMTIEGLKKAFPETKLD
ParentalKKKYPYWPHQPIENL
KKKYP..PHQPI.NL
RetrocopyKKKYP**PHQPIKNL

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_2478 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 29 parental genes, and 113 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000091156 retrocopies
retro_amel_1265, retro_amel_1560, retro_amel_1615, retro_amel_1672, retro_amel_1823, retro_amel_921,
Bos taurus ENSBTAG000000212275 retrocopies
retro_btau_1663, retro_btau_319, retro_btau_608, retro_btau_674, retro_btau_823,
Canis familiaris ENSCAFG000000047031 retrocopy
retro_cfam_178,
Callithrix jacchus ENSCJAG0000001462215 retrocopies
retro_cjac_1005, retro_cjac_1036, retro_cjac_1159, retro_cjac_1740, retro_cjac_1825, retro_cjac_1831, retro_cjac_2096, retro_cjac_2196, retro_cjac_2488, retro_cjac_2543, retro_cjac_2849, retro_cjac_3141, retro_cjac_456, retro_cjac_737, retro_cjac_739,
Cavia porcellus ENSCPOG000000040223 retrocopies
retro_cpor_1429, retro_cpor_547, retro_cpor_972,
Dasypus novemcinctus ENSDNOG000000069132 retrocopies
retro_dnov_1725, retro_dnov_412,
Equus caballus ENSECAG000000094872 retrocopies
retro_ecab_526, retro_ecab_706,
Echinops telfairi ENSETEG000000032178 retrocopies
retro_etel_133, retro_etel_172, retro_etel_1894, retro_etel_266, retro_etel_283, retro_etel_419, retro_etel_713, retro_etel_97,
Felis catus ENSFCAG000000228882 retrocopies
retro_fcat_636, retro_fcat_837,
Homo sapiens ENSG000001678634 retrocopies
retro_hsap_1133, retro_hsap_1561, retro_hsap_4134, retro_hsap_4223,
Gorilla gorilla ENSGGOG000000137164 retrocopies
retro_ggor_1186, retro_ggor_2778, retro_ggor_2827, retro_ggor_884,
Macropus eugenii ENSMEUG000000093461 retrocopy
retro_meug_788,
Microcebus murinus ENSMICG000000174844 retrocopies
retro_mmur_1216, retro_mmur_593, retro_mmur_785, retro_mmur_895,
Myotis lucifugus ENSMLUG000000106207 retrocopies
retro_mluc_1267, retro_mluc_1386, retro_mluc_1722, retro_mluc_2076, retro_mluc_2421, retro_mluc_464, retro_mluc_833,
Macaca mulatta ENSMMUG000000116471 retrocopy
retro_mmul_208,
Mustela putorius furoENSMPUG000000140489 retrocopies
retro_mputfur_1266, retro_mputfur_1466, retro_mputfur_151, retro_mputfur_1589, retro_mputfur_1617, retro_mputfur_268, retro_mputfur_301, retro_mputfur_405, retro_mputfur_904,
Mus musculus ENSMUSG000000345666 retrocopies
retro_mmus_1296, retro_mmus_168, retro_mmus_1793, retro_mmus_259, retro_mmus_2794, retro_mmus_298,
Nomascus leucogenys ENSNLEG00000000561 4 retrocopies
retro_nleu_1057, retro_nleu_1728, retro_nleu_2478 , retro_nleu_927,
Oryctolagus cuniculus ENSOCUG000000155372 retrocopies
retro_ocun_1332, retro_ocun_655,
Otolemur garnettii ENSOGAG000000019904 retrocopies
retro_ogar_1372, retro_ogar_2438, retro_ogar_436, retro_ogar_736,
Procavia capensis ENSPCAG000000153302 retrocopies
retro_pcap_160, retro_pcap_296,
Pongo abelii ENSPPYG000000086154 retrocopies
retro_pabe_1291, retro_pabe_3415, retro_pabe_3416, retro_pabe_3470,
Pan troglodytes ENSPTRG000000096284 retrocopies
retro_ptro_1050, retro_ptro_2810, retro_ptro_2867, retro_ptro_769,
Rattus norvegicus ENSRNOG000000036261 retrocopy
retro_rnor_197,
Sorex araneus ENSSARG000000133703 retrocopies
retro_sara_434, retro_sara_473, retro_sara_474,
Sarcophilus harrisii ENSSHAG000000187082 retrocopies
retro_shar_711, retro_shar_726,
Ictidomys tridecemlineatus ENSSTOG000000151542 retrocopies
retro_itri_1086, retro_itri_846,
Tupaia belangeri ENSTBEG000000125453 retrocopies
retro_tbel_1122, retro_tbel_1184, retro_tbel_728,
Tursiops truncatus ENSTTRG000000026182 retrocopies
retro_ttru_1298, retro_ttru_739,




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