RetrogeneDB ID:

retro_nleu_2578

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397374.1:5567596..5568500(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:KIAA1191
Ensembl ID:ENSNLEG00000012473
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_2578
TTGGCTTCAACACCACCAGAAGTGCCTGCTCTTGAGGCTGGTGGGCTTCTAGGCAAGATGTCCCTGCCCATCCGGATAAA
CTGCTGAGCATCCAGCTATGATGATGCCCTCGAGGACCCTGTGCCCATGACTCCTCCATGGGACACGGGCAGCGTCCGCT
GGAAGCCAGTGATTCCAGAGTGCAAGTTTCAGTGCCTCGCCAAGGAGGAGGAAGGAGAGGCCAGCCTACCGGCCCCTGAC
ATGACCCTGTCATTGACAGTGTGACACAGTCCCAGTGGTGAAGTCTAAAGCTACCCATATCATCATGAATTCTCTGTTCA
CAAAACAGACCCAGGAAAGTACTCAGCATTTTGGGTGACAAGCAGGGCTGAGAGGTGCTGGCTACACACCACACAAGGGC
CTCACCACGGAGGAGACCAAGTACCTTCGAGTGGCAGAAGTGCTCCACCAACTAAAGCTACAGAGTGGAGAAAGAACAAG
AGAAGAGAGGCAGCCTGCATCAGCCCAGTCAGCCCCAAGCTGCACTCCTCACTCTTCCCCTGAGCAGAGGCCCAGAGGCT
GGTTCACTTCTGGTTCCTCCACAGCTTTACCTGGCCCAAATCCCAGCACCATGGATTCTGGAAGTGGAGATAAGGACAGA
AACTTGTCAGATGAGTGGAGCCTCTTTGGACCAAGATCCCTTCAGAAGGATGATTCTGGAAGTTTTGCCACCCAGGCCTA
CCAAGGAGCCCAGAAGCCGTCTCTGATGGCACTGATCCGTGCCCAGGCCAACCACATGACTAGAGATCTGGCAACCTTGA
AGCCGCCCAAGATGGACATCCCAGTGATGGAAGGGAATAAACAGCTGCCACGGACCCATCATCTCAAACCTGGTAACTTG
AATGTGCTCACACCCACTGGCTTC

ORF - retro_nleu_2578 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.48 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMASRQPEVPALEASGPLGKMSLPIGIYRRALSYDDTLEDPAPMTPPPSDMGSVPWKPVIPERKYQHLAKV
.AS..PEVPALEA.G.LGKMSLPI.I...A.SYDD.LEDP.PMTPP..D.GSV.WKPVIPE.K.Q.LAK.
RetrocopyLASTPPEVPALEAGGLLGKMSLPIRINC*ASSYDDALEDPVPMTPP-WDTGSVRWKPVIPECKFQCLAKE
ParentalEEGEASLPSPAMTLSSA-IDSV-DKVPVVKAKATHVIMNSLITKQTQESIQHFERQAGLRDAGYTPHKGL
EEGEASL..PA.......IDSV.D.VPVVK.KATH.IMNSL.TKQTQES.QHF..QAGLR.AGYTPHKGL
RetrocopyEEGEASL--PAPDMTLS<IDSV<DTVPVVKSKATHIIMNSLFTKQTQESTQHFG*QAGLRGAGYTPHKGL
ParentalTTEETKYLRVAEALHKLKLQSGEITKEERQPASAQSTPSTTPHSSPKQRPRGWFTSGSSTALPGPNPSTM
TTEETKYLRVAE.LH.LKLQSGE.T.EERQPASAQS.PS.TPHSSP.QRPRGWFTSGSSTALPGPNPSTM
RetrocopyTTEETKYLRVAEVLHQLKLQSGERTREERQPASAQSAPSCTPHSSPEQRPRGWFTSGSSTALPGPNPSTM
ParentalDSGSGDKDRNLSDKWSLFGPRSLQKYDSGSFATQAYRGAQKPSPLELIRAQANRMAEDPAALKPPKMDIP
DSGSGDKDRNLSD.WSLFGPRSLQK.DSGSFATQAY.GAQKPS...LIRAQAN.M..D.A.LKPPKMDIP
RetrocopyDSGSGDKDRNLSDEWSLFGPRSLQKDDSGSFATQAYQGAQKPSLMALIRAQANHMTRDLATLKPPKMDIP
ParentalVMEGKKQPPQAHNLKPRDLNVLTPTGF
VMEG.KQ.P..H.LKP..LNVLTPTGF
RetrocopyVMEGNKQLPRTHHLKPGNLNVLTPTGF

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_2578 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 25 parental genes, and 64 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000061234 retrocopies
retro_chof_1411, retro_chof_1751, retro_chof_2197, retro_chof_959,
Callithrix jacchus ENSCJAG000000123372 retrocopies
retro_cjac_1699, retro_cjac_901,
Cavia porcellus ENSCPOG000000194021 retrocopy
retro_cpor_625,
Dasypus novemcinctus ENSDNOG000000026763 retrocopies
retro_dnov_2220, retro_dnov_753, retro_dnov_976,
Equus caballus ENSECAG000000032381 retrocopy
retro_ecab_621,
Felis catus ENSFCAG000000071891 retrocopy
retro_fcat_1625,
Homo sapiens ENSG000001222034 retrocopies
retro_hsap_1641, retro_hsap_3089, retro_hsap_524, retro_hsap_817,
Gorilla gorilla ENSGGOG000000238344 retrocopies
retro_ggor_1240, retro_ggor_2122, retro_ggor_482, retro_ggor_669,
Loxodonta africana ENSLAFG000000288781 retrocopy
retro_lafr_313,
Myotis lucifugus ENSMLUG000000034981 retrocopy
retro_mluc_667,
Macaca mulatta ENSMMUG000000039213 retrocopies
retro_mmul_1082, retro_mmul_1566, retro_mmul_1971,
Monodelphis domestica ENSMODG000000052746 retrocopies
retro_mdom_116, retro_mdom_1992, retro_mdom_218, retro_mdom_56, retro_mdom_722, retro_mdom_751,
Mustela putorius furoENSMPUG000000125791 retrocopy
retro_mputfur_1237,
Mus musculus ENSMUSG000000258712 retrocopies
retro_mmus_1580, retro_mmus_737,
Nomascus leucogenys ENSNLEG00000012473 4 retrocopies
retro_nleu_1327, retro_nleu_2233, retro_nleu_251, retro_nleu_2578 ,
Oryctolagus cuniculus ENSOCUG000000121913 retrocopies
retro_ocun_1263, retro_ocun_1415, retro_ocun_1509,
Otolemur garnettii ENSOGAG000000082816 retrocopies
retro_ogar_1543, retro_ogar_1986, retro_ogar_2289, retro_ogar_3002, retro_ogar_3075, retro_ogar_781,
Procavia capensis ENSPCAG000000088391 retrocopy
retro_pcap_277,
Pongo abelii ENSPPYG000000160684 retrocopies
retro_pabe_223, retro_pabe_2558, retro_pabe_2615, retro_pabe_729,
Pan troglodytes ENSPTRG000000175585 retrocopies
retro_ptro_1111, retro_ptro_2086, retro_ptro_2975, retro_ptro_392, retro_ptro_568,
Pteropus vampyrus ENSPVAG000000124481 retrocopy
retro_pvam_118,
Rattus norvegicus ENSRNOG000000171332 retrocopies
retro_rnor_968, retro_rnor_969,
Ictidomys tridecemlineatus ENSSTOG000000009462 retrocopies
retro_itri_1163, retro_itri_960,
Tupaia belangeri ENSTBEG000000131891 retrocopy
retro_tbel_2271,
Tursiops truncatus ENSTTRG000000053761 retrocopy
retro_ttru_383,


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