RetrogeneDB ID:

retro_nleu_869

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397275.1:23485588..23486321(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSNLEG00000019201
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:YWHAQ
Ensembl ID:ENSNLEG00000013534
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_869
ATGGAGAAGACTGAGGTGATCCAGAAGGCCAAGCTGGCCGAGCAGGCCGAGCGCTACGACGACATGGCCACCTGCATGAA
GGCAGTGACCGAGCAGGGCGCCGAGCTGTCCCACGAGGAGTGCAACCTGCTCTCTGTGGCCTACAAGAACGTGGTGGGGG
CCCGCAGGTCCGCCTGGAAGGTCATCCCTAGCATCAGCAGAAGACTGACACCTCCAACAAGAAGTTGCAGCTGATTAAGG
ACTATCAGGAGAAAGTGGAGTCCAGCTGAGATCCATCTGCAAAAGGGTCCTGGAATTGTTGGATAAATATTTAATAGCCA
ATGCAACTAATCCAGAGAGTAAGGTGTTCTATCTGAAAATGAAGGGTGATTACTTCCAGTACCTTGCTGAAGTTGCATGT
GGTGATGATCAAAAACAAATGATAGATAATTCCCAAGGAGCTTACCAAGAGGCATTTGATATAAGCAAGAAAGAGATGCA
ACCCGCACACCCAATCCGCCTGGGGCTTGCTCTTAACTTTTCTGTATTTTACTATGAGATTCTTAATAACCCAGAGCTTG
CCTGCATGCTGGCTAAAACAGCTTTTGATGAGGCCATTGCTCAACTTGATACACTGAATGAAGACTCATACAAAGACAGC
ACCCTCATCATGCAGTTGCTTAGAGACAACCTAACACTTTGGACATTAGACAGTGCAGGAGAAGAATGTGATGCGGCAGA
AGGGGCTGAAAAC

ORF - retro_nleu_869 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.45 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMEKTELIQKAKLAEQAERYDDMATCMKAVTEQGAELSNEERNLLSVAYKNVVGGRRSAWRVISSI-EQKT
MEKTE.IQ..........YDDMATCMKAVTEQGAELS.EE.NLLSVAYKNVVG.RRSAW.VI.SI..QKT
RetrocopyMEKTEVIQXXXXXXXXXXYDDMATCMKAVTEQGAELSHEECNLLSVAYKNVVGARRSAWKVIPSI<QQKT
ParentalDTSDKKLQLIKDYREKVES-ELRSICTTVLELLDKYLIANATNPESKVFYLKMKGDYFRYLAEVACGDDR
DTS.KKLQLIKDY.EKVES..LRSIC..VLELLDKYLIANATNPESKVFYLKMKGDYF.YLAEVACGDD.
RetrocopyDTSNKKLQLIKDYQEKVES<QLRSICKRVLELLDKYLIANATNPESKVFYLKMKGDYFQYLAEVACGDDQ
ParentalKQTIDNSQGAYQEAFDISKKEMQPTHPIRLGLALNFSVFYYEILNNPELACTLAKTAFDEAIAELDTLNE
KQ.IDNSQGAYQEAFDISKKEMQP.HPIRLGLALNFSVFYYEILNNPELAC.LAKTAFDEAIA.LDTLNE
RetrocopyKQMIDNSQGAYQEAFDISKKEMQPAHPIRLGLALNFSVFYYEILNNPELACMLAKTAFDEAIAQLDTLNE
ParentalDSYKDSTLIMQLLRDNLTLWTSDSAGEECDAAEGAEN
DSYKDSTLIMQLLRDNLTLWT.DSAGEECDAAEGAEN
RetrocopyDSYKDSTLIMQLLRDNLTLWTLDSAGEECDAAEGAEN

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_869 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 24 parental genes, and 86 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000086184 retrocopies
retro_amel_1214, retro_amel_1382, retro_amel_1837, retro_amel_917,
Bos taurus ENSBTAG000000021082 retrocopies
retro_btau_1180, retro_btau_86,
Choloepus hoffmanni ENSCHOG0000000466113 retrocopies
retro_chof_136, retro_chof_1427, retro_chof_1605, retro_chof_1835, retro_chof_2026, retro_chof_2115, retro_chof_2134, retro_chof_2233, retro_chof_429, retro_chof_481, retro_chof_489, retro_chof_527, retro_chof_863,
Callithrix jacchus ENSCJAG000000063942 retrocopies
retro_cjac_2197, retro_cjac_3127,
Cavia porcellus ENSCPOG000000113214 retrocopies
retro_cpor_135, retro_cpor_1463, retro_cpor_616, retro_cpor_668,
Equus caballus ENSECAG000000049251 retrocopy
retro_ecab_134,
Echinops telfairi ENSETEG000000153594 retrocopies
retro_etel_1027, retro_etel_1048, retro_etel_235, retro_etel_65,
Felis catus ENSFCAG000000078542 retrocopies
retro_fcat_1702, retro_fcat_771,
Macropus eugenii ENSMEUG000000144427 retrocopies
retro_meug_1122, retro_meug_1208, retro_meug_1259, retro_meug_1549, retro_meug_1918, retro_meug_2106, retro_meug_538,
Myotis lucifugus ENSMLUG000000053831 retrocopy
retro_mluc_1817,
Monodelphis domestica ENSMODG000000147401 retrocopy
retro_mdom_1339,
Mustela putorius furoENSMPUG000000132522 retrocopies
retro_mputfur_1132, retro_mputfur_730,
Mus musculus ENSMUSG0000007643210 retrocopies
retro_mmus_1076, retro_mmus_1378, retro_mmus_1926, retro_mmus_2250, retro_mmus_2299, retro_mmus_2471, retro_mmus_2689, retro_mmus_3250, retro_mmus_3308, retro_mmus_406,
Nomascus leucogenys ENSNLEG000000006562 retrocopies
retro_nleu_2067, retro_nleu_2868,
Nomascus leucogenys ENSNLEG000000032207 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 ENSNLEG00000013534 3 retrocopies
retro_nleu_2543, retro_nleu_750, retro_nleu_869 ,
Oryctolagus cuniculus ENSOCUG000000104821 retrocopy
retro_ocun_1463,
Otolemur garnettii ENSOGAG000000005473 retrocopies
retro_ogar_1047, retro_ogar_1732, retro_ogar_39,
Pelodiscus sinensis ENSPSIG000000126921 retrocopy
retro_psin_2,
Pteropus vampyrus ENSPVAG000000053341 retrocopy
retro_pvam_983,
Rattus norvegicus ENSRNOG000000081045 retrocopies
retro_rnor_1569, retro_rnor_2065, retro_rnor_2123, retro_rnor_2180, retro_rnor_2746,
Sorex araneus ENSSARG000000124764 retrocopies
retro_sara_1, retro_sara_162, retro_sara_179, retro_sara_23,
Tursiops truncatus ENSTTRG000000008714 retrocopies
retro_ttru_1006, retro_ttru_1109, retro_ttru_1530, retro_ttru_1536,


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