RetrogeneDB ID:

retro_nleu_975

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397277.1:33056387..33057143(-)
Located in intron of:ENSNLEG00000013097
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ATP5F1
Ensembl ID:ENSNLEG00000003971
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_975
ATGCTGTCCTGGATGGTACTTTTTGCTGCCACCACAGTGGCTCTGTCTCTGAAGAATGCAGCCTTCCTAGGTCCATGGGT
ATTGCAGGCAACAAGGACCTTTCACACAGTGCAGCCACACCTTGCCGTTCTACCACCTCTTCCTCAATATGGAGGAAAAG
TTCATCTTGGACTGATTCTGAGGAATTCTTCCTGTTTCTTTATCCTAAAACTGGTGTAACAGGACCCTATGTGCTTGGAA
TTGGGCTTATCTTGTATGCTTTATCCAAAGAAATATATGTGATTACCACAGAGACCTTCTCTACCATATCAGTAGTAGGG
TTACTTGTCTATGCAATTAAAAAAATATGATGCCTCTCTTGCAGAATTTGCTGATAAACTCAATGAGCAAAAACTTGTCC
AACTAGAAGAGGCAAAGCAGGCTTCCATCAAACAAATCCAGGATGCAACTGATTTGGAGAAATCACAGCAGGTACTGCCA
TTACTTTTTGATGTGCAGAGGAATAACATTCCTATGGCTTTGGAGGTTACTTACCAGGAATGACTGTATAGAGTACATAA
GGAAGTAAAAAATTGCCTGGACTATCATATATCCTTGCAGAACATGATGCATCAAAAGGAACAAGAGCACATTATAAATG
GGGTGGAGAAGCATGTGGTGCAGAGCATCTCTGCACAGTAGGAAAAGGAGACAATTGCCAAGTGCATTACAGACCTAAAG
CTGCTGGCAAAGAAGGCTCAAGCACAGACAGTTATG

ORF - retro_nleu_975 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.93 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMLSRVVLSAAATAAPSLKNAAFLGPGVLQATRTFHTGQPHLAPVPPLPEYGGKVRYGLI-PEEFFQFLYP
MLS..VL.AA.T.A.SLKNAAFLGP.VLQATRTFHT.QPHLA..PPLP.YGGKV..GLI..EEFF.FLYP
RetrocopyMLSWMVLFAATTVALSLKNAAFLGPWVLQATRTFHTVQPHLAVLPPLPQYGGKVHLGLI<SEEFFLFLYP
ParentalKTGVTGPYVLGTGLILYALSKEIYVISAETFTALSVIGIMVYGIKK-YGPSVADFADKLNEQKLAQLEEA
KTGVTGPYVLG.GLILYALSKEIYVI..ETF...SV.G..VY.IKK.Y..S.A.FADKLNEQ....L...
RetrocopyKTGVTGPYVLGIGLILYALSKEIYVITTETFSTISVVGLLVYAIKK>YDASLAEFADKLNEQ---KLVQL
ParentalKQASIQQIQNAIDMEKSQQALAQKRHYLFDVQRNNIAMALEITYRERLYRVYKEVKNRLDYHISVQNMMR
..A....I....D.........Q....LFDVQRNNI.MALE.TY.E.LYRV.KEVKN.LDYHIS.QNMM.
RetrocopyEEAKQASIKQIQDATDLEKS-QQVLPLLFDVQRNNIPMALEVTYQE*LYRVHKEVKNCLDYHISLQNMMH
ParentalQKEQEHMINWVEKHVVQSISTQQEKETIAKCIADLKLLAKKAQAQPVM
QKEQEH.IN.VEKHVVQSIS.Q.EKETIAKCI.DLKLLAKKAQAQ.VM
RetrocopyQKEQEHIINGVEKHVVQSISAQ*EKETIAKCITDLKLLAKKAQAQTVM

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_975 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 26 parental genes, and 77 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000054331 retrocopy
retro_amel_1118,
Bos taurus ENSBTAG000000064411 retrocopy
retro_btau_745,
Callithrix jacchus ENSCJAG000000133539 retrocopies
retro_cjac_1943, retro_cjac_2270, retro_cjac_2482, retro_cjac_2747, retro_cjac_2815, retro_cjac_2854, retro_cjac_3067, retro_cjac_528, retro_cjac_833,
Cavia porcellus ENSCPOG000000140703 retrocopies
retro_cpor_1120, retro_cpor_448, retro_cpor_563,
Equus caballus ENSECAG000000185991 retrocopy
retro_ecab_494,
Echinops telfairi ENSETEG000000107133 retrocopies
retro_etel_105, retro_etel_1784, retro_etel_408,
Felis catus ENSFCAG000000283211 retrocopy
retro_fcat_1012,
Homo sapiens ENSG000001164596 retrocopies
retro_hsap_1705, retro_hsap_1951, retro_hsap_3673, retro_hsap_3762, retro_hsap_3812, retro_hsap_828,
Gorilla gorilla ENSGGOG000000052156 retrocopies
retro_ggor_1279, retro_ggor_1721, retro_ggor_2482, retro_ggor_2530, retro_ggor_2564, retro_ggor_678,
Loxodonta africana ENSLAFG000000048091 retrocopy
retro_lafr_602,
Microcebus murinus ENSMICG000000119921 retrocopy
retro_mmur_846,
Myotis lucifugus ENSMLUG000000124171 retrocopy
retro_mluc_2184,
Macaca mulatta ENSMMUG000000033133 retrocopies
retro_mmul_1086, retro_mmul_1659, retro_mmul_1791,
Mus musculus ENSMUSG000000005632 retrocopies
retro_mmus_2215, retro_mmus_791,
Nomascus leucogenys ENSNLEG00000003971 8 retrocopies
retro_nleu_172, retro_nleu_2090, retro_nleu_2153, retro_nleu_2154, retro_nleu_2546, retro_nleu_260, retro_nleu_524, retro_nleu_975 ,
Oryctolagus cuniculus ENSOCUG000000078091 retrocopy
retro_ocun_25,
Otolemur garnettii ENSOGAG000000114863 retrocopies
retro_ogar_2102, retro_ogar_2295, retro_ogar_2887,
Pongo abelii ENSPPYG000000010323 retrocopies
retro_pabe_2056, retro_pabe_3012, retro_pabe_3111,
Pan troglodytes ENSPTRG000000010995 retrocopies
retro_ptro_1154, retro_ptro_1305, retro_ptro_2553, retro_ptro_2586, retro_ptro_578,
Pteropus vampyrus ENSPVAG000000106043 retrocopies
retro_pvam_1061, retro_pvam_1110, retro_pvam_283,
Sorex araneus ENSSARG000000021073 retrocopies
retro_sara_424, retro_sara_428, retro_sara_610,
Sarcophilus harrisii ENSSHAG000000131851 retrocopy
retro_shar_700,
Ictidomys tridecemlineatus ENSSTOG000000076303 retrocopies
retro_itri_1146, retro_itri_1219, retro_itri_503,
Tarsius syrichta ENSTSYG000000004205 retrocopies
retro_tsyr_1226, retro_tsyr_1553, retro_tsyr_1852, retro_tsyr_502, retro_tsyr_511,
Tursiops truncatus ENSTTRG000000015461 retrocopy
retro_ttru_1654,
Vicugna pacos ENSVPAG000000002062 retrocopies
retro_vpac_154, retro_vpac_319,


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