RetrogeneDB ID:

retro_ogar_151

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873940.1:27182..28685(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOGAG00000028182
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:GMCL1
Ensembl ID:ENSOGAG00000008408
Aliases:None
Description:germ cell-less, spermatogenesis associated 1 [Source:HGNC Symbol;Acc:23843]


Retrocopy-Parental alignment summary:






>retro_ogar_151
ATGGGGACTTTAAGCAGTCAAATCCTGCGATGTAAGGAAACAGGCACAGTAGATCTGCAGCAGCCAGAAGTCCAGGCGGG
CCCCAGTTATATGTCTGGCAGTCGCAAGCGCAAGCATGGTGGTGGGCCCTGCTTGGAGTCAAAATCTGACAGCCATTGGT
CTCTGGGGCAGGAAGAGAATCTACAGCAAATCCTCAGTACAAGCAGCAGAAAAAAAGTTAAGATCACATCCAAGTATGCT
TACCAAACTTTATTTTTGAATGGGGAAACCAGTGACATTAAAATCCGTGCTCTGGGGAAAGTATGGTGTTTACACAAAAT
ATTTTTATGTCAATCAGGCTACTTTGCTAATATGTTCAGGGGTTCTTGGAAAGAAACTCACAAAGATATTATTGAACTGG
AGATTAATGACCAGAATATAGATGTGGAATCGTTGCATTTTGTACTAGGCTCATTGTACAGGGATGAAAATGTCTTAATG
GAGCCCCTTCAGGTTCCAGGAGTTTTGGCAACAGCGTATCTGCTTCAGGTAAAGGACTTAACTCAGCAATGTGACGAGAC
TATGACGAAAACGATTAATGTGAAAACTGTATGTGGTTATTATGCAGCAGCAGAAAGCTATGGGTTAGATTATGTAAAGA
CAAGGTGCTTTGAATGGCTTCTTCACAATTTGATGACACACCCAAGTGTTGAACTTTACAAAGAAGTCAGTATAGATCTC
ATGAATCTGCTCATCTCTTCTTCTAATTTACTAGTAACGCAAAAGGAAATGGATGTATACACCACACTTAAAGAGTGGAT
GTTTCTTCGCCTTAACCCAGCTTGGAAAGGCTCAATGAAACAGCTTTTAGTTAATGCGAACAACTGGTTTTCTAGGCACA
GAAAATGTGTTGGTAATACTGCCTTTCTCGAAACAAAAGAAGGCATAACATTTCAACCAGTGTTTAAAAAATTAAGGTTT
CAACATATCATCTGTGACCTTGCCTCCACGAGAGTTATTGAACAAGATACTCTAATACCGTCAGAATGGTTATCCGCTGT
TTACAAACAACAGTGGTTTACTTTGCTCAGGGCACAACAATACAGGGAAATTGGGCCTCAAGACATTAATGAAACAGAAC
TTGAAGAATACAGCATGAGATGTGGTAAAAGGATTATCAAAGATGGAAAATACTCCTGGAAATGGTCAGGTTTCAACTTT
GGCTTTCCCTTACATGTGATCTTTACCAGCCATTATATAATTTTCAAGCAAAATACTTTTAGTCAGCTTTGTGAAGGTTC
TGAATGTTTGCAACCTCTACGAAATATTGCATTCAGATTAACTCTGGCATATTTTGATTCCAGTGGAAAAATAAGTTTCA
GCAAAACAACTGGTTATAAAATCCTTACTTTTGAAAAGGATGAAGAACAAGTGGTGATGAAGTTGGATAGCATAGTTCTG
AGCTTCCCTTTGTATATATTCTGTAACTTCCTGTTTATATCATTGGAAAATACAGGAAACTGA

ORF - retro_ogar_151 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 62.13 %
Parental protein coverage: 88.99 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalYCPSSRKRKRSSGAFCYCHPDSETEEDEEEGDEQQRLLNTPRSRKKLKSTSKYIYQTLFLNGENSDIKIC
Y...SRKRK...G.......DS......EE....Q..L.T..SRKK.K.TSKY.YQTLFLNGE.SDIKI.
RetrocopyYMSGSRKRKHGGGPCLESKSDSHWSLGQEEN--LQQILSTS-SRKKVKITSKYAYQTLFLNGETSDIKIR
ParentalALGEEWSLHKIYLCQSGYFSSMFSGSWKESSMNIIELEIPDQNIDIEALQVAFGSLYRDD-VLIKPSRVI
ALG..W.LHKI.LCQSGYF..MF.GSWKE....IIELEI.DQNID.E.L....GSLYRD..VL..P..V.
RetrocopyALGKVWCLHKIFLCQSGYFANMFRGSWKETHKDIIELEINDQNIDVESLHFVLGSLYRDENVLMEPLQVP
ParentalAILAAACMLQLDGLIQQCGETMKETINVKTVCGYYTSAGTYGLDSVKKKCLEWLLNNLMTHQNVELFKEL
..LA.A..LQ...L.QQC.ETM..TINVKTVCGYY..A..YGLD.VK..C.EWLL.NLMTH..VEL.KE.
RetrocopyGVLATAYLLQVKDLTQQCDETMTKTINVKTVCGYYAAAESYGLDYVKTRCFEWLLHNLMTHPSVELYKEV
ParentalSINVMKQLIGSSNLFVMQVEMDVYTALKKWMFLQLVPSWNGSLKQLLTETDVWFSKRKKDFEGMTFLETE
SI..M..LI.SSNL.V.Q.EMDVYT.LK.WMFL.L.P.W.GS.KQLL.....WFS...K......FLET.
RetrocopySIDLMNLLISSSNLLVTQKEMDVYTTLKEWMFLRLNPAWKGSMKQLLVNANNWFSRHRKCVGNTAFLETK
ParentalQGKPFVPVFRHLRLQYIISDLASARIIEQDSLVPSEWLSSVYKQQWLAMLRAEQDSEMGPQEINKEELEG
.G..F.PVF..LR.Q.II.DLAS.R.IEQD.L.PSEWLS.VYKQQW...LRA.Q..E.GPQ.IN..ELE.
RetrocopyEGITFQPVFKKLRFQHIICDLASTRVIEQDTLIPSEWLSAVYKQQWFTLLRAQQYREIGPQDINETELEE
ParentalNSMRCGRKLAKDGEYCWRWTGFNFGFDLLVTYTNRYIIFKRNTLNQPCSGSVSLQPRRSIAFRLRLASFD
.SMRCG....KDG.Y.W.W.GFNFGF.L.V..T..YIIFK.NT..Q.C.GS..LQP.R.IAFRL.LA.FD
RetrocopyYSMRCGKRIIKDGKYSWKWSGFNFGFPLHVIFTSHYIIFKQNTFSQLCEGSECLQPLRNIAFRLTLAYFD
ParentalSSGKLICSRTTGYQILTLEKDQEQVVMNLDSRLLIFPLYICCNFLYISPE
SSGK...S.TTGY.ILT.EKD.EQVVM.LDS..L.FPLYI.CNFL.IS.E
RetrocopySSGKISFSKTTGYKILTFEKDEEQVVMKLDSIVLSFPLYIFCNFLFISLE

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






RNA-Seq - click to see more details

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Otolemur garnettii was not studied using ChIP-Seq data.

EST - click to see more details

Otolemur garnettii was not studied using EST data.

TSS - click to see more details

Otolemur garnettii was not studied using FANTOM5 data.

Lab - click to see more details

retro_ogar_151 was not experimentally validated.

Retrocopy orthology:
Otolemur garnettii 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 19 parental genes, and 29 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000161161 retrocopy
retro_amel_1915,
Choloepus hoffmanni ENSCHOG000000123062 retrocopies
retro_chof_1562, retro_chof_802,
Equus caballus ENSECAG000000168132 retrocopies
retro_ecab_1109, retro_ecab_899,
Homo sapiens ENSG000000873381 retrocopy
retro_hsap_3407,
Loxodonta africana ENSLAFG000000025653 retrocopies
retro_lafr_220, retro_lafr_592, retro_lafr_98,
Myotis lucifugus ENSMLUG000000091832 retrocopies
retro_mluc_1521, retro_mluc_31,
Macaca mulatta ENSMMUG000000008581 retrocopy
retro_mmul_98,
Mus musculus ENSMUSG000000011571 retrocopy
retro_mmus_3665,
Nomascus leucogenys ENSNLEG000000101321 retrocopy
retro_nleu_2993,
Oryctolagus cuniculus ENSOCUG000000158082 retrocopies
retro_ocun_112, retro_ocun_160,
Otolemur garnettii ENSOGAG00000008408 1 retrocopy
retro_ogar_151 ,
Pongo abelii ENSPPYG000000123341 retrocopy
retro_pabe_209,
Pan troglodytes ENSPTRG000000120211 retrocopy
retro_ptro_2314,
Pteropus vampyrus ENSPVAG000000012423 retrocopies
retro_pvam_1259, retro_pvam_370, retro_pvam_816,
Sorex araneus ENSSARG000000046511 retrocopy
retro_sara_425,
Sus scrofa ENSSSCG000000083351 retrocopy
retro_sscr_62,
Ictidomys tridecemlineatus ENSSTOG000000007141 retrocopy
retro_itri_59,
Tursiops truncatus ENSTTRG000000074933 retrocopies
retro_ttru_1039, retro_ttru_1647, retro_ttru_1648,
Vicugna pacos ENSVPAG000000017561 retrocopy
retro_vpac_617,


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