RetrogeneDB ID:

retro_mmul_1082

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:14:100205384..100206289(+)
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:ENSMMUG00000003921
Aliases:None
Description:KIAA1191 [Source:HGNC Symbol;Acc:29209]


Retrocopy-Parental alignment summary:






>retro_mmul_1082
ATGGCTTCAAGACAACCAGGAGTGCCTGCTCTTGAGGCTAGTGGGTCTCTAGGCAAGACGTTCCTGCTCATCAGGATACA
CCATTGGGCATCCAGCTATCATGATGCCCTCAAGGACCCTGTGCCCATGACTCTTCCTCCATCGGACATAGGCACTGTCC
CCTGGAAGCCAGTTATTCCAGAGCACAATATCGGTGCCTCACCAAGGTGGAGCAAGATGAGGCCAGCCTACCCTCCCCAG
CCATGACCCTGGCCATCGACAGTGTGGACAAAGTCCCAGTGGTGAAGGCTAAGCTACCCATGTCATCATGAATTATCTGA
TAACAAAACAGACCCAGGAAAGCATTCAGCATTTTGGGTGACAGGCAGGGCTGAGAGATGCTGGCTACACACCCCACAGG
GGCCTCACCACCAAGGAGACCAACTACCTTCCAGTGGCAGAAACACTCCACAAACTAAAGCTATAGAGTGGACAGATAAC
AAAAGAAGAGAGGCAGCCTGTATCAGCCCAGTCACCCCAAGCACCACTCCTCATTCCTCCCCTAGGCAGAAGCCCAGAGG
CTGGTTCACTTCTGGTTCTTCCACAGCCTTACCTGGCCCAAATCCTAGCACCATGGATTCTGGAAGTGGGGATAAGGACA
GAAACTTGTCAGATAAATGGAGCCTCTTTGGACCAAGATGCCTTCAGAAGTATGATTCTGGAAGTTTTGCCACCCAGGCC
TACCAAGAGCCCAGAAGCCTTCTCCAATGGAATTGATCCATGCCCAGGCCAACTGAATGGCTGAAGATGCAGTAACCTTG
AAGCTGCCCAAGACGAACATCCTAGTGATGGAAGGGAAGAAACAGCCACCACGGACCCATAAGCTCAAACCGCCTCACTT
GAATGTGTTCACACCCACTGGCTTC

ORF - retro_mmul_1082 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.67 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 3
Number of frameshifts detected: 4


Retrocopy - Parental Gene Alignment:

ParentalMASRQPEVPALEASGPLGNMSLPIGIYRRALSYDDTLEDPAPMTPPPSDMGSVPWKPVIPER-KYQHLAK
MASRQP.VPALEASG.LG...L.I.I...A.SY.D.L.DP.PMT.PPSD.G.VPWKPVIPE...Y..L.K
RetrocopyMASRQPGVPALEASGSLGKTFLLIRIHHWASSYHDALKDPVPMTLPPSDIGTVPWKPVIPEH<QYRCLTK
ParentalVEEGEANLPSSAMTLSSAIDSVDKVPVVKAK-ATHVIMNSLITKQTQESIQHFERQAGLRDAGYTPHKGL
VE..EA.LPS.AMTL..AIDSVDKVPVVKAK.ATHVIMN.LITKQTQESIQHF..QAGLRDAGYTPH.GL
RetrocopyVEQDEASLPSPAMTL--AIDSVDKVPVVKAK<ATHVIMNYLITKQTQESIQHFG*QAGLRDAGYTPHRGL
ParentalTTEETKYLRVAEALHKLKLQSGEITKEERQPASAQS-TPSTSPHSSPKQRPRGWFTSGSSTALPGPNPST
TT.ET.YL.VAE.LHKLKL.SG.ITKEERQP.SAQS.TPST.PHSSP.Q.PRGWFTSGSSTALPGPNPST
RetrocopyTTKETNYLPVAETLHKLKL*SGQITKEERQPVSAQS<TPSTTPHSSPRQKPRGWFTSGSSTALPGPNPST
ParentalMDSGSGDKDRNLSDKWSLFGPRSLQKYDSGSFATQAYR-GAQKPSPLELIRAQTNQMAEEPAALKPPKMD
MDSGSGDKDRNLSDKWSLFGPR.LQKYDSGSFATQAY...AQKPSP.ELI.AQ.N.MAE....LK.PK..
RetrocopyMDSGSGDKDRNLSDKWSLFGPRCLQKYDSGSFATQAYQ<RAQKPSPMELIHAQAN*MAEDAVTLKLPKTN
ParentalIPVVEGKKPPPRAHNLKPRDLNVLTPTGF
I.V.EGKK.PPR.H.LKP..LNV.TPTGF
RetrocopyILVMEGKKQPPRTHKLKPPHLNVFTPTGF

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain 0 .00 RPM 25 .88 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 41 .09 RPM
SRP007412_cerebellum 0 .00 RPM 18 .34 RPM
SRP007412_heart 0 .00 RPM 15 .31 RPM
SRP007412_kidney 0 .00 RPM 48 .36 RPM
SRP007412_liver 0 .00 RPM 9 .06 RPM
SRP007412_testis 0 .00 RPM 11 .72 RPM

ChIP-Seq - click to see more details

Macaca mulatta was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mmul_1082 retrocopy.

TSS - click to see more details

Macaca mulatta was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmul_1082 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_1082 has 5 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_817
Pan troglodytes retro_ptro_568
Gorilla gorilla retro_ggor_669
Pongo abelii retro_pabe_729
Callithrix jacchus retro_cjac_901
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 ENSMMUG00000003921 3 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 ENSNLEG000000124734 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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