RetrogeneDB ID:

retro_nleu_1368

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397291.1:23059130..23059865(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:YWHAZ
Ensembl ID:ENSNLEG00000003220
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_1368
GTGGATAAAAATGAGCTGGTTCAGAAGGCCAATCTGGCCGATCAGGCTGAGTGATATGATGACATGGCAGCCTGCATGAA
GTCTGTAACTGAGCAAGGAGCTTAATTATCCAATGAGGAGAGGAATCTTCTCTCAGTTGCTTATAGAAATGTTGTAGGAG
CCCGTAGGTCATCTTGGAGGGTCGTCTCGAGTATTGAACAAAAGACGAAAGGTGCTGAGAAAAAAACAGCAGATGGCTCA
AGAATACAGAGAGAAAACTGAGACCGAGCTAAGAGATAGCTGCAATGATGTACTGTCTCTTTTGGAAAAGTTCTTGATCC
CCAATGCCTCACAAGCGAGAGCAAATTCTTCCATTTGAAAATGAAAGGAGTTCACTGCCGTTACTTGGCTGAGGTTGCCG
CTGGTGATGACAAGAAAGGGATTGTGGATCAGTCACAACAAGCATACCAAGAAGCTTTTGAAATCAGCAAAAAGGAAATG
CAACCAACATATCCTATCAGACTGGGTCTGGCCCTTAACTTCTCCGTGTTCTATTATGACGTTCTGAATTCCCCAGAGAA
AGCCTGCTCTCTTGCAAAGACAGCTTTTGATGAAGCCATTGCTGAACTTGATACATTAAGTGAAGAGTCGTACAAAGACA
GCACACTAATAATGCAATTACTGAGAGACAACTTAACATTGTGGACATCGGATACCCAAGGAGATGAAGCTGAAGCTGGA
AAAGGAGGGGAAAAT

ORF - retro_nleu_1368 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.5 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMDKNELVQKAKLAEQAERYDDMAACMKSVTEQGAELSNEERNLLSVAYKNVVGARRSSWRVVSSIEQKTE
.DKNELVQKA.LA.QAE.YDDMAACMKSVTEQGA.LSNEERNLLSVAY.NVVGARRSSWRVVSSIEQKT.
RetrocopyVDKNELVQKANLADQAE*YDDMAACMKSVTEQGA*LSNEERNLLSVAYRNVVGARRSSWRVVSSIEQKTK
ParentalGAE-KKQQMAREYREKIETELRDICNDVLSLLEKFLIPNASQA-ESKVFYLKMKGDYYRYLAEVAAGDDK
GAE.KKQQMA.EYREK.ETELRD.CNDVLSLLEKFLIPNASQA.ESK.F.LKMKG...RYLAEVAAGDDK
RetrocopyGAE>KKQQMAQEYREKTETELRDSCNDVLSLLEKFLIPNASQA<ESKFFHLKMKGVHCRYLAEVAAGDDK
ParentalKGIVDQSQQAYQEAFEISKKEMQPTHPIRLGLALNFSVFYYEILNSPEKACSLAKTAFDEAIAELDTLSE
KGIVDQSQQAYQEAFEISKKEMQPT.PIRLGLALNFSVFYY..LNSPEKACSLAKTAFDEAIAELDTLSE
RetrocopyKGIVDQSQQAYQEAFEISKKEMQPTYPIRLGLALNFSVFYYDVLNSPEKACSLAKTAFDEAIAELDTLSE
ParentalESYKDSTLIMQLLRDNLTLWTSDTQGDEAEAGEGGEN
ESYKDSTLIMQLLRDNLTLWTSDTQGDEAEAG.GGEN
RetrocopyESYKDSTLIMQLLRDNLTLWTSDTQGDEAEAGKGGEN

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_1368 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 20 parental genes, and 74 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000086942 retrocopies
retro_acar_25, retro_acar_44,
Bos taurus ENSBTAG000000002364 retrocopies
retro_btau_1482, retro_btau_635, retro_btau_68, retro_btau_910,
Canis familiaris ENSCAFG000000005806 retrocopies
retro_cfam_1302, retro_cfam_1521, retro_cfam_158, retro_cfam_1840, retro_cfam_233, retro_cfam_465,
Callithrix jacchus ENSCJAG000000158445 retrocopies
retro_cjac_1769, retro_cjac_2164, retro_cjac_3000, retro_cjac_31, retro_cjac_881,
Dasypus novemcinctus ENSDNOG0000000167210 retrocopies
retro_dnov_1007, retro_dnov_117, retro_dnov_1354, retro_dnov_1579, retro_dnov_1769, retro_dnov_1907, retro_dnov_1993, retro_dnov_2588, retro_dnov_892, retro_dnov_99,
Ficedula albicollis ENSFALG000000058601 retrocopy
retro_falb_13,
Felis catus ENSFCAG000000320174 retrocopies
retro_fcat_1563, retro_fcat_1631, retro_fcat_1697, retro_fcat_60,
Gallus gallus ENSGALG000000107251 retrocopy
retro_ggal_3,
Gorilla gorilla ENSGGOG000000221339 retrocopies
retro_ggor_1092, retro_ggor_1754, retro_ggor_211, retro_ggor_2379, retro_ggor_2997, retro_ggor_2998, retro_ggor_3020, retro_ggor_499, retro_ggor_544,
Mus musculus ENSMUSG000000222853 retrocopies
retro_mmus_163, retro_mmus_2187, retro_mmus_744,
Nomascus leucogenys ENSNLEG000000006562 retrocopies
retro_nleu_2067, retro_nleu_2868,
Nomascus leucogenys ENSNLEG00000003220 7 retrocopies
retro_nleu_1368 , retro_nleu_1426, retro_nleu_2186, retro_nleu_23, retro_nleu_449, retro_nleu_487, retro_nleu_722,
Nomascus leucogenys ENSNLEG000000066432 retrocopies
retro_nleu_42, retro_nleu_422,
Nomascus leucogenys ENSNLEG000000135343 retrocopies
retro_nleu_2543, retro_nleu_750, retro_nleu_869,
Oryctolagus cuniculus ENSOCUG000000007342 retrocopies
retro_ocun_1091, retro_ocun_248,
Pongo abelii ENSPPYG000000187917 retrocopies
retro_pabe_103, retro_pabe_1242, retro_pabe_2047, retro_pabe_3417, retro_pabe_3740, retro_pabe_556, retro_pabe_89,
Pelodiscus sinensis ENSPSIG000000037031 retrocopy
retro_psin_13,
Sarcophilus harrisii ENSSHAG000000126712 retrocopies
retro_shar_126, retro_shar_409,
Sus scrofa ENSSSCG000000060622 retrocopies
retro_sscr_222, retro_sscr_35,
Taeniopygia guttata ENSTGUG000000120781 retrocopy
retro_tgut_4,


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