RetrogeneDB ID:

retro_mmul_75

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:13:13214636..13215914(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMMUG00000030932
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.2229
Ensembl ID:ENSMMUG00000009940
Aliases:None
Description:histone-binding protein RBBP4 [Source:RefSeq peptide;Acc:NP_001247967]


Retrocopy-Parental alignment summary:






>retro_mmul_75
ATGGCCGACAAGGAAGCAGCGTTCGACGACGCAGTGGAAGAACGAGTGATCAACGAGGAATACAAAATATGGAAAAAGAA
CACCCCTTTTCTTTATGATTTGGTGATGACCCATGCTCTGGAGTGGCCCAGCCTAACTGCCCAGTGGCTTCCAGATGTAA
CAAGACCAGAAGGGAAAGATTTCAGCATTCATCGACTTGTCCTGGGGACACACACATCGGATGAACAAAACCATCTTGTT
ATAGCCAGTGTGCAACTCCCTAATGATGATGCTCAGTTTGATGCGTCACACTACGACAGTGAGAAAGGAGAATTTGGAGG
TTTTGGTTCAGTTAGTGGAAAAATTGAAATAGAAATCAAGATCAACCATGAAGGAGAAGTAAACAGGGCCCGTTATATGC
CCCAGAACCCTTGTATCATCGCAACAAAGACTCCTTCCAGTGATGTTCTTGTCTTTGACTATACAAAACATCCTTCTAAA
CCAGATCCTTCTGGAGAGTGCAACCCAGACTTGCGTCTCCGTGGACATCAAAAGGAAGGCTATGGGCTTTCTTGGAACCC
AAATCTCAGTGGGCACTTACTTAGTGCTTCAGATGACCACACCATCTGCCTGTGGGACATCAGTGCCGTTCCAAAGGAGG
GAAAAGTGGTGGATGCAAAGACCATCTTTACAGGGCATACGGCAGTAGTAGAAGATGTTTCCTGGCATCTGCTCCATGAG
TCTCTGTTTGGGTCAGTTGCTGATGATCAGAAACTTATGATTTGGGATACTCGTTCAAACAATACTTCCAAACCAAGCCA
CTCAGTCGACGCTCACACTGCTGAAGTGAACTGCCTTTCTTTCAATCCTTATAGTGAGTTCATTCTTGCCACAGGATCAG
CTGACAAGACTGTTGCCTTGTGGGATCTGAGAAATCTGAAACTTAAGTTGCATTCCTTTGAGTCACATAAGGATGAAATA
TTCCAGGTTCAGTGGTCACCTCACAATGAGACTATTTTGGCTTCCAGTGGTACTGATCGCAGACTGAATGTCTGGGATTT
AAGTAAAATTGGAGAAGAACAATCCCTGGAAGATGCAGAAGATGGGCCACCAGAGTTGTTGTTTATTCATGGTGGTCACA
CTGCCAAGATATCTGATTTCTCCTGGAATCCCAATGAACCTTGGGTGATTTGTTCTGTATCAGAAGACAATATCATGCAA
GTGTGGCAAATGGCAGAGAACATTTATAATGATGAAGACCCTGAAGGAAGCGTGGATCCAGAAGGACAAGGGTCCTAG

ORF - retro_mmul_75 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 99.76 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMADKEAAFDDAVEERVINEEYKIWKKNTPFLYDLVMTHALEWPSLTAQWLPDVTRPEGKDFSIHRLVLGT
MADKEAAFDDAVEERVINEEYKIWKKNTPFLYDLVMTHALEWPSLTAQWLPDVTRPEGKDFSIHRLVLGT
RetrocopyMADKEAAFDDAVEERVINEEYKIWKKNTPFLYDLVMTHALEWPSLTAQWLPDVTRPEGKDFSIHRLVLGT
ParentalHTSDEQNHLVIASVQLPNDDAQFDASHYDSEKGEFGGFGSVSGKIEIEIKINHEGEVNRARYMPQNPCII
HTSDEQNHLVIASVQLPNDDAQFDASHYDSEKGEFGGFGSVSGKIEIEIKINHEGEVNRARYMPQNPCII
RetrocopyHTSDEQNHLVIASVQLPNDDAQFDASHYDSEKGEFGGFGSVSGKIEIEIKINHEGEVNRARYMPQNPCII
ParentalATKTPSSDVLVFDYTKHPSKPDPSGECNPDLRLRGHQKEGYGLSWNPNLSGHLLSASDDHTICLWDISAV
ATKTPSSDVLVFDYTKHPSKPDPSGECNPDLRLRGHQKEGYGLSWNPNLSGHLLSASDDHTICLWDISAV
RetrocopyATKTPSSDVLVFDYTKHPSKPDPSGECNPDLRLRGHQKEGYGLSWNPNLSGHLLSASDDHTICLWDISAV
ParentalPKEGKVVDAKTIFTGHTAVVEDVSWHLLHESLFGSVADDQKLMIWDTRSNNTSKPSHSVDAHTAEVNCLS
PKEGKVVDAKTIFTGHTAVVEDVSWHLLHESLFGSVADDQKLMIWDTRSNNTSKPSHSVDAHTAEVNCLS
RetrocopyPKEGKVVDAKTIFTGHTAVVEDVSWHLLHESLFGSVADDQKLMIWDTRSNNTSKPSHSVDAHTAEVNCLS
ParentalFNPYSEFILATGSADKTVALWDLRNLKLKLHSFESHKDEIFQVQWSPHNETILASSGTDRRLNVWDLSKI
FNPYSEFILATGSADKTVALWDLRNLKLKLHSFESHKDEIFQVQWSPHNETILASSGTDRRLNVWDLSKI
RetrocopyFNPYSEFILATGSADKTVALWDLRNLKLKLHSFESHKDEIFQVQWSPHNETILASSGTDRRLNVWDLSKI
ParentalGEEQSPEDAEDGPPELLFIHGGHTAKISDFSWNPNEPWVICSVSEDNIMQVWQMAENIYNDEDPEGSVDP
GEEQS.EDAEDGPPELLFIHGGHTAKISDFSWNPNEPWVICSVSEDNIMQVWQMAENIYNDEDPEGSVDP
RetrocopyGEEQSLEDAEDGPPELLFIHGGHTAKISDFSWNPNEPWVICSVSEDNIMQVWQMAENIYNDEDPEGSVDP
ParentalEGQGS
EGQGS
RetrocopyEGQGS

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 35 .41 RPM
SRP007412_brain_prefrontal_cortex 0 .95 RPM 57 .28 RPM
SRP007412_cerebellum 0 .19 RPM 34 .68 RPM
SRP007412_heart 0 .06 RPM 13 .37 RPM
SRP007412_kidney 0 .12 RPM 21 .71 RPM
SRP007412_liver 0 .20 RPM 12 .59 RPM
SRP007412_testis 0 .19 RPM 53 .34 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_75 retrocopy.

TSS - click to see more details

Macaca mulatta was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmul_75 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_75 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 28 parental genes, and 76 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000059042 retrocopies
retro_btau_1610, retro_btau_630,
Canis familiaris ENSCAFG000000105271 retrocopy
retro_cfam_1550,
Choloepus hoffmanni ENSCHOG000000040666 retrocopies
retro_chof_1382, retro_chof_1649, retro_chof_1867, retro_chof_2116, retro_chof_2327, retro_chof_908,
Callithrix jacchus ENSCJAG000000010217 retrocopies
retro_cjac_1157, retro_cjac_1787, retro_cjac_1873, retro_cjac_244, retro_cjac_2557, retro_cjac_2719, retro_cjac_2939,
Cavia porcellus ENSCPOG000000153523 retrocopies
retro_cpor_154, retro_cpor_27, retro_cpor_899,
Equus caballus ENSECAG000000227841 retrocopy
retro_ecab_767,
Echinops telfairi ENSETEG000000200084 retrocopies
retro_etel_1088, retro_etel_1462, retro_etel_1877, retro_etel_676,
Felis catus ENSFCAG000000270171 retrocopy
retro_fcat_1507,
Homo sapiens ENSG000001625216 retrocopies
retro_hsap_1305, retro_hsap_2675, retro_hsap_2814, retro_hsap_3292, retro_hsap_3600, retro_hsap_3601,
Gorilla gorilla ENSGGOG000000113134 retrocopies
retro_ggor_1022, retro_ggor_1314, retro_ggor_1867, retro_ggor_2428,
Macropus eugenii ENSMEUG000000143791 retrocopy
retro_meug_1032,
Myotis lucifugus ENSMLUG000000007492 retrocopies
retro_mluc_2275, retro_mluc_892,
Macaca mulatta ENSMMUG000000020721 retrocopy
retro_mmul_1342,
Macaca mulatta ENSMMUG00000009940 1 retrocopy
retro_mmul_75 ,
Monodelphis domestica ENSMODG000000174156 retrocopies
retro_mdom_1542, retro_mdom_1833, retro_mdom_1873, retro_mdom_1900, retro_mdom_563, retro_mdom_765,
Mustela putorius furoENSMPUG000000152141 retrocopy
retro_mputfur_104,
Mus musculus ENSMUSG000000572361 retrocopy
retro_mmus_356,
Nomascus leucogenys ENSNLEG000000028056 retrocopies
retro_nleu_1061, retro_nleu_1179, retro_nleu_1194, retro_nleu_1356, retro_nleu_1379, retro_nleu_2982,
Otolemur garnettii ENSOGAG000000116322 retrocopies
retro_ogar_3079, retro_ogar_3297,
Procavia capensis ENSPCAG000000110301 retrocopy
retro_pcap_116,
Petromyzon marinus ENSPMAG000000071891 retrocopy
retro_pmar_26,
Pongo abelii ENSPPYG000000015886 retrocopies
retro_pabe_1093, retro_pabe_2210, retro_pabe_2720, retro_pabe_2958, retro_pabe_3529, retro_pabe_3611,
Pteropus vampyrus ENSPVAG000000109812 retrocopies
retro_pvam_1094, retro_pvam_902,
Rattus norvegicus ENSRNOG000000214921 retrocopy
retro_rnor_1270,
Sarcophilus harrisii ENSSHAG000000109231 retrocopy
retro_shar_399,
Ictidomys tridecemlineatus ENSSTOG000000120111 retrocopy
retro_itri_1168,
Tupaia belangeri ENSTBEG000000022363 retrocopies
retro_tbel_1360, retro_tbel_1718, retro_tbel_3802,
Vicugna pacos ENSVPAG000000118764 retrocopies
retro_vpac_333, retro_vpac_419, retro_vpac_652, retro_vpac_94,


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