RetrogeneDB ID:

retro_mmul_118

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:1099548049678:26279..28154(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMMUG00000029293
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:GSPT1
Ensembl ID:ENSMMUG00000023178
Aliases:None
Description:G1 to S phase transition 1 [Source:HGNC Symbol;Acc:4621]


Retrocopy-Parental alignment summary:






>retro_mmul_118
ATGGATTCAGGCAGCAGCAGCAGCGACTCGGCGCCCGATTGCTGGGACCAGGTGGACATGGAAGCCCCGAGCGGGGATGG
AGTCTCCTCTGCGGTGGCCGAGGCCCAGCGCGAGCCCCTGAGCTCGGCCTTCAGCCGTCAGCTCAACGTCAACGCCAAGC
CCTTCGTGCCTAACGTACACGCCGCGGAGTTCGTGCCGTCCTTCCTGCGGGGCCCGACTCAGCCGCCCACCCTCCCGGCC
GGCTCCGGCAGCAACGATGAAACCTGCACCGGCGCGGGATACCCTCAAGGTAAAAGGATGGGACGGGGGGCACCTGTGGA
ACCTTCCCGAGAGGAACCGTTAGTGTCGCTTGAAGGTTCCAATTCAGCCGTTACCATGGAACTTTCAGAACCTGTTGTAG
AAAATGGAGAGGTGGAAATGGCCCTAGAAGAATCATGGGAGCACAGTAAAGAAGTAAGTGAAGCTGAGCCTGGGGGTGGT
TCCTCGGGAGATTCGGGGCCCCCAGAAGAAAGTGGCCAGGAAATGATGGAGGAAAAAGAGGAAATAAGAAAATCCAAATA
TATGATTGTACCCTCAGGTGCTCCTAAGAAAGAACACGTAAATGTAGTATTCATTGGCCATGTAGACGCTGGCAAGTCAA
CCATCGGAGGACAGATAATGTTTTTGACTGGAATGGTTGACAAAAGAACACTGGAGAAATATGAAAGAGAAGCTAAGGAG
AAAAACAGAGAAACATGGTATTTGTCCTGGGCCTTAGATACAAATCACGAAGAACGAGACAAGGGTAAAACAGTCGAAGT
GGGTCGTGCTTATTTTGAAACAGAAAGGAAACATTTCACAATTTTAGATGCCCCTGGCCACAAGAGTTTTGTCCCAAATA
TGATTGGTGGTGCTTCCCAAGCTGATTTGGCTGTGCTGGTCATCTCTGCCAGGAAAGGAGAGTTTGAAACTGGATTTGAA
AAAGGTGGACAGACAAGAGAACATGCGATGTTGGCAAAAACGGCAGGGGTAAAACATTTAATAGTGCTTATTAATAAGAT
GGATGATCCCACAGTAAATTGGAGCATCGAGAGATATGAAGAATGTAAAGAAAAACTGGTACCCTTTTTGAAAAAAGTCG
GCTTCAGTCCAAAAAAGGACATTCACTTTATGCCCTGCTCAGGACTGACCGGAGCAAATATTAAAGAGCAATCAGATTTC
TGCCCTTGGTACACTGGATTACCATTTATTCCGTATTTGGATAACTTGCCAAACTTCAACAGATCAATTGATGGACCAAT
AAGACTGCCAATTGTGGATAAGTACAAGGATATGGGCACTGTGGTCCTGGGAAAGCTGGAATCTGGGTCCATTTTTAAAG
GCCAGCAGCTTGTGATGATGCCAAACAAGCACAATGTAGAAGTTCTTGGAATACTTTCTGATGATACTGAAACTGATTTT
GTAGCCCCAGGTGAAAACCTCAAAATCAGACTGAAGGGAATTGAAGAAGAAGAGATTCTTCCAGGATTCATACTTTGTGA
TCCTAGTAACCTCTGCCATTCTGGACGCACGTTTGATGTTCAGATAGTGATTATTGAGCACAAATCCATCATCTGCCCAG
GTTATAATGCGGTGCTGCACATTCATACTTGTATTGAGGAAGTTGAGATAACAGCCTTAATCTCCTTGGTAGACAAAAAA
TCAGGAGAAAAAAGTAAGACACGACCCCGCTTCGTGAAACAAGATCAAGTATGCATTGCTCGTTTAAGGACAGCAGGAAC
CATCTGCCTCGAGACGTTCAAAGATTTTCCTCAGATGGGTCGTTTTACTTTAAGAGATGAGGGTAAGACCATTGCAATTG
GAAAAGTTCTGAAACTGGTCCCAGAGAAGGACTAA

ORF - retro_mmul_118 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.46 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalPSVENGETEMSPEESWEHKEEISEAEPGVGSLGDGRPPEESAHEMMEEEEEIPKPKSVVAPPGAPKKEHV
P.VENGE.EM..EESWEH..E.SEAEPG.GS.GD..PPEES..EMMEE.EEI.K.K....P.GAPKKEHV
RetrocopyPVVENGEVEMALEESWEHSKEVSEAEPGGGSSGDSGPPEESGQEMMEEKEEIRKSKYMIVPSGAPKKEHV
ParentalNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRA
NVVFIGHVDAGKSTIGGQIM.LTGMVDKRTLEKYEREAKEKNRETWYLSWALDTN.EERDKGKTVEVGRA
RetrocopyNVVFIGHVDAGKSTIGGQIMFLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNHEERDKGKTVEVGRA
ParentalYFETEKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHL
YFETE.KHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHL
RetrocopyYFETERKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHL
ParentalIVLINKMDDPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSDFCPWYIGLPFI
IVLINKMDDPTVNWS.ERYEECKEKLVPFLKKVGF.PKKDIHFMPCSGLTGAN.KEQSDFCPWY.GLPFI
RetrocopyIVLINKMDDPTVNWSIERYEECKEKLVPFLKKVGFSPKKDIHFMPCSGLTGANIKEQSDFCPWYTGLPFI
ParentalPYLDNLPNFNRSVDGPIRLPIVDKYKTESHTLFSRLECMNVSENLQSCFI-LKHNVEVLGILSDDVETDT
PYLDNLPNFNRS.DGPIRLPIVDKYK.........LE........Q......KHNVEVLGILSDD.ETD.
RetrocopyPYLDNLPNFNRSIDGPIRLPIVDKYKDMGTVVLGKLESGSIFKGQQLVMMPNKHNVEVLGILSDDTETDF
ParentalVAPGENLKIRLKGIEEEEILPGFILCDPNNLCHSGRTFDAQIVIIEHKSIICPGYNAVLHIHTCIEEVEI
VAPGENLKIRLKGIEEEEILPGFILCDP.NLCHSGRTFD.QIVIIEHKSIICPGYNAVLHIHTCIEEVEI
RetrocopyVAPGENLKIRLKGIEEEEILPGFILCDPSNLCHSGRTFDVQIVIIEHKSIICPGYNAVLHIHTCIEEVEI
ParentalTALICLVDKKSGEKSKTRPRFVKQDQVCIARLRTAGTICLETFKDFPQMGRFTLRDEGKTIAIGKVLKLV
TALI.LVDKKSGEKSKTRPRFVKQDQVCIARLRTAGTICLETFKDFPQMGRFTLRDEGKTIAIGKVLKLV
RetrocopyTALISLVDKKSGEKSKTRPRFVKQDQVCIARLRTAGTICLETFKDFPQMGRFTLRDEGKTIAIGKVLKLV
ParentalPEKD
PEKD
RetrocopyPEKD

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 12 .55 RPM 42 .58 RPM
SRP007412_brain_prefrontal_cortex 10 .71 RPM 27 .29 RPM
SRP007412_cerebellum 11 .62 RPM 31 .06 RPM
SRP007412_heart 4 .53 RPM 24 .56 RPM
SRP007412_kidney 9 .15 RPM 43 .66 RPM
SRP007412_liver 3 .88 RPM 28 .14 RPM
SRP007412_testis 41 .95 RPM 22 .92 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_118 retrocopy.

TSS - click to see more details

Macaca mulatta was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmul_118 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_118 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 26 parental genes, and 29 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000095891 retrocopy
retro_amel_4,
Bos taurus ENSBTAG000000035772 retrocopies
retro_btau_1793, retro_btau_1840,
Canis familiaris ENSCAFG000000188561 retrocopy
retro_cfam_2072,
Callithrix jacchus ENSCJAG000000181911 retrocopy
retro_cjac_618,
Cavia porcellus ENSCPOG000000093811 retrocopy
retro_cpor_73,
Equus caballus ENSECAG000000211951 retrocopy
retro_ecab_739,
Echinops telfairi ENSETEG000000182491 retrocopy
retro_etel_1626,
Felis catus ENSFCAG000000222811 retrocopy
retro_fcat_1913,
Gorilla gorilla ENSGGOG000000040711 retrocopy
retro_ggor_2906,
Microcebus murinus ENSMICG000000141371 retrocopy
retro_mmur_28,
Myotis lucifugus ENSMLUG000000007921 retrocopy
retro_mluc_98,
Macaca mulatta ENSMMUG000000048021 retrocopy
retro_mmul_353,
Macaca mulatta ENSMMUG00000023178 1 retrocopy
retro_mmul_118 ,
Monodelphis domestica ENSMODG000000047281 retrocopy
retro_mdom_1420,
Mustela putorius furoENSMPUG000000145041 retrocopy
retro_mputfur_147,
Mus musculus ENSMUSG000000622031 retrocopy
retro_mmus_238,
Nomascus leucogenys ENSNLEG000000101991 retrocopy
retro_nleu_2705,
Oryctolagus cuniculus ENSOCUG000000047591 retrocopy
retro_ocun_1664,
Otolemur garnettii ENSOGAG000000070831 retrocopy
retro_ogar_100,
Pteropus vampyrus ENSPVAG000000050091 retrocopy
retro_pvam_1426,
Rattus norvegicus ENSRNOG000000023351 retrocopy
retro_rnor_2931,
Sarcophilus harrisii ENSSHAG000000059081 retrocopy
retro_shar_14,
Ictidomys tridecemlineatus ENSSTOG000000154061 retrocopy
retro_itri_109,
Tupaia belangeri ENSTBEG000000088732 retrocopies
retro_tbel_3810, retro_tbel_4659,
Tarsius syrichta ENSTSYG000000138122 retrocopies
retro_tsyr_1169, retro_tsyr_148,
Tursiops truncatus ENSTTRG000000116301 retrocopy
retro_ttru_12,


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