RetrogeneDB ID:

retro_nleu_1143

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397282.1:24170780..24171197(-)
Located in intron of:ENSNLEG00000012988
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSNLEG00000011668
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_1143
ATTTACCCGGAGGTGCTGCTGCTTGTTGTGGGTGTGATGGCTTTGGGGTTACTTTCCGGAGCTGCAGCATTGACTGTGCA
GGCCAGCAGTCCCAATGAGGCGACCGCAGTGCACTCCATGGCATCTGGAGGTGGTTGGTGCTCCTAGTGATGGTGAGCAG
GTGACTGGGTTGGAGAGGGAGGTCATGATGACTGCACTGAAGGGACTGGACCCTACAATATACTGACCCCAAAGGCAGCC
TCAGGAACCATGGAGGAGTCTAATTTAGTCCTGTCCATCACCAACAAGCAAATAGGGGGCTGTGTCTGTGAAGAGGACAA
CAGCGTCATCATCTGGTTTTGGCTGCGCAAAGGCAAGACCCAGCAATGCCTTAATTGTAGAACCCATTACAAGGTGGTGT
CCCAGCAGGTGGCCCAC

ORF - retro_nleu_1143 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 61.11 %
Parental protein coverage: 77.47 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalLFPEVLLLVTDAMASRLLRGAGALAAQALRARGPSGTAAVRSMAS-GG-GVPTDEEQATGLEREVMLAAK
..PEVLLLV...MA..LL.GA.AL..Q...A..P....AV.SMAS.GG.G.P.D.EQ.TGLEREVM..A.
RetrocopyIYPEVLLLVVGVMALGLLSGAAALTVQ---ASSPNEATAVHSMASGGG>GAPSDGEQVTGLEREVMMTAL
ParentalKGLD-PYNILAPKGASGTREDPNLVPSISNKRIVGCICEEDNTSVVWFWLHKGEAQRCPRCGAHYKLVPQ
KGLD.PYNIL.PK.ASGT.E..NLV.SI.NK.I.GC.CEEDN....WFWL.KG..Q.C..C..HYK.V.Q
RetrocopyKGLD<PYNILTPKAASGTMEESNLVLSITNKQIGGCVCEEDNSVIIWFWLRKGKTQQCLNCRTHYKVVSQ
ParentalQLAH
Q.AH
RetrocopyQVAH

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_1143 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 ENSAMEG000000052427 retrocopies
retro_amel_1546, retro_amel_1583, retro_amel_1744, retro_amel_1867, retro_amel_536, retro_amel_65, retro_amel_746,
Bos taurus ENSBTAG000000185422 retrocopies
retro_btau_1018, retro_btau_1651,
Canis familiaris ENSCAFG000000023878 retrocopies
retro_cfam_1231, retro_cfam_1284, retro_cfam_1307, retro_cfam_1494, retro_cfam_1779, retro_cfam_2130, retro_cfam_398, retro_cfam_712,
Callithrix jacchus ENSCJAG000000169116 retrocopies
retro_cjac_1679, retro_cjac_2119, retro_cjac_2477, retro_cjac_3096, retro_cjac_495, retro_cjac_505,
Dipodomys ordii ENSDORG000000149943 retrocopies
retro_dord_246, retro_dord_360, retro_dord_72,
Equus caballus ENSECAG000000079683 retrocopies
retro_ecab_189, retro_ecab_674, retro_ecab_762,
Erinaceus europaeus ENSEEUG000000002581 retrocopy
retro_eeur_402,
Felis catus ENSFCAG000000017047 retrocopies
retro_fcat_1572, retro_fcat_1795, retro_fcat_1961, retro_fcat_331, retro_fcat_568, retro_fcat_600, retro_fcat_776,
Homo sapiens ENSG000001359407 retrocopies
retro_hsap_1295, retro_hsap_270, retro_hsap_3058, retro_hsap_3667, retro_hsap_3908, retro_hsap_903, retro_hsap_997,
Gorilla gorilla ENSGGOG000000011426 retrocopies
retro_ggor_2101, retro_ggor_2479, retro_ggor_2635, retro_ggor_317, retro_ggor_730, retro_ggor_796,
Loxodonta africana ENSLAFG000000093862 retrocopies
retro_lafr_605, retro_lafr_696,
Macropus eugenii ENSMEUG000000058552 retrocopies
retro_meug_1202, retro_meug_1712,
Myotis lucifugus ENSMLUG000000145121 retrocopy
retro_mluc_336,
Mustela putorius furoENSMPUG000000113278 retrocopies
retro_mputfur_1412, retro_mputfur_1528, retro_mputfur_1559, retro_mputfur_367, retro_mputfur_811, retro_mputfur_851, retro_mputfur_871, retro_mputfur_983,
Mus musculus ENSMUSG000000615181 retrocopy
retro_mmus_59,
Nomascus leucogenys ENSNLEG00000011668 5 retrocopies
retro_nleu_114, retro_nleu_1143 , retro_nleu_1652, retro_nleu_380, retro_nleu_871,
Oryctolagus cuniculus ENSOCUG000000170852 retrocopies
retro_ocun_1639, retro_ocun_508,
Otolemur garnettii ENSOGAG000000168403 retrocopies
retro_ogar_1136, retro_ogar_1365, retro_ogar_2269,
Ochotona princeps ENSOPRG000000020303 retrocopies
retro_opri_1128, retro_opri_334, retro_opri_568,
Pongo abelii ENSPPYG000000120786 retrocopies
retro_pabe_1074, retro_pabe_1907, retro_pabe_2532, retro_pabe_3184, retro_pabe_399, retro_pabe_778,
Pan troglodytes ENSPTRG000000122577 retrocopies
retro_ptro_1983, retro_ptro_226, retro_ptro_2488, retro_ptro_2658, retro_ptro_623, retro_ptro_754, retro_ptro_887,
Rattus norvegicus ENSRNOG000000166602 retrocopies
retro_rnor_2740, retro_rnor_2741,
Sorex araneus ENSSARG000000112751 retrocopy
retro_sara_579,
Sarcophilus harrisii ENSSHAG000000173583 retrocopies
retro_shar_656, retro_shar_793, retro_shar_797,
Sus scrofa ENSSSCG000000081954 retrocopies
retro_sscr_306, retro_sscr_562, retro_sscr_757, retro_sscr_893,
Ictidomys tridecemlineatus ENSSTOG000000109803 retrocopies
retro_itri_1185, retro_itri_848, retro_itri_94,
Tupaia belangeri ENSTBEG000000121304 retrocopies
retro_tbel_1170, retro_tbel_2821, retro_tbel_3647, retro_tbel_3684,
Tursiops truncatus ENSTTRG000000134905 retrocopies
retro_ttru_1438, retro_ttru_253, retro_ttru_270, retro_ttru_596, retro_ttru_790,
Vicugna pacos ENSVPAG000000065601 retrocopy
retro_vpac_249,


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