RetrogeneDB ID:

retro_ogar_355

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873520.1:47423602..47424512(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GAPDHS
Ensembl ID:ENSOGAG00000009491
Aliases:None
Description:glyceraldehyde-3-phosphate dehydrogenase, spermatogenic [Source:HGNC Symbol;Acc:24864]


Retrocopy-Parental alignment summary:






>retro_ogar_355
GTGTATATTGTCATCAGCAATGACTCCTTTATTGACCTTGACTACATGATCTACATGTTTCAGTATGACTCCACCCATGG
CAAGTTCTATGGCACAGTCAAGTGTGAGAACAGGAAGCCTGTCATCAATGGACAGCCCATAACCATCTTCCAGGAGTGAG
ATCCCACCAAGATCAAATGAGGGAAGTGGATATTGATTACATTGTGGAGTCTACGGGCATCTTCACTACCATAGAGGAGG
CTGGAGCTCACCTAGCAGGAGGTGACAAAAGGGTCATCATCTCTGCCACTTCTGCTGATGCCCCATGTTTGTGATGGGTG
TGGACCATGAGAAGTACAAAAGCAACCTCACCATTTTCAGCAAAACCTCCTGCACCAAGGTCATCCTGGCCAAGGGCATC
TATGGCAACTTTGGCATCGTGGAGGGACTCATGACCACAGTCCATGCTGTCACTGCCACTCAGAAGACTGTGGATGGCCC
CTCTGGGAAGATGTGGTGTGATGGCTGTGGGGCTCCCCAGAACTTCATCCCTGCCTCAACTGGTGCAGCCAAGGCTGTGG
ACAATGCCATCCTTGAACTGAAAGAGAAGCTCATTGGCATGGCCTTCCATGTCCCCACTGCCATTGTGTTGGTCATGAGA
GTAACCTGCCATCTGGGGAAGCCTGCCAAATACAATGAGATCAAGAAGGTGGTGAAGTAGGTGTTGAAGGGCCTACTCAA
TGGCATCCTGAGTTACACTGAGCATCTGATTGTCTCCTCTGACTTCAACGGTGACACTCACTCTTCTACCTTTGATGCTG
GAACTGGCATCACCCTCAGTGACCACTTTGTCAGACTCATTGCCTAGGATAACAGTAAATTTGGCTACAGCTACAGGGTG
ATGGACCTTGTGACCCAGATATTCTCCAAG

ORF - retro_ogar_355 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 53.55 %
Parental protein coverage: 71.96 %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalVKVVAVNDPFIDPEYMVYMFKYDSTHGRYKGNVDYKNGQLVVDNQEITVYQCKAPKEI-PWRNVGSPYVV
V..V..ND.FID..YM.YMF.YDSTHG...G.V...N...V...Q.IT..Q...P..I...R.V...Y.V
RetrocopyVYIVISNDSFIDLDYMIYMFQYDSTHGKFYGTVKCENRKPVINGQPITIFQE*DPTKI<QMREVDIDYIV
ParentalESTGVYLSLEATSDHISAGAQRVVICAPSPDA-PMFVMGVNENDYNPNSMNIVSNASCTTNCLAPLAKVI
ESTG.....E....H...G..RV.I.A.S.DA.PMFVMGV....Y..N...I.S..SCT...LA...K.I
RetrocopyESTGIFTTIEEAGAHLAGGDKRVIISATSADA<PMFVMGVDHEKYKSN-LTIFSKTSCTKVILA---KGI
ParentalHEQFGIVEGLMTTVHSYTATQKTVDGPSRKAWRDGRGAHQNIIPASTGAAKAVGSVIPALKGKLTGMAFR
...FGIVEGLMTTVH..TATQKTVDGPS.K.W.DG.GA.QN.IPASTGAAKAV...I..LK.KL.GMAF.
RetrocopyYGNFGIVEGLMTTVHAVTATQKTVDGPSGKMWCDGCGAPQNFIPASTGAAKAVDNAILELKEKLIGMAFH
ParentalVPTPDVSVVDLTCRLARPTPYSAIKEAMKTAAKGPMAGILAYTEDEVVSTDFTGDTHSSIFDAKAGIALN
VPT..V.V...TC.L..P..Y..IK...K...KG...GIL.YTE...VS.DF.GDTHSS.FDA..GI.L.
RetrocopyVPTAIVLVMRVTCHLGKPAKYNEIKKVVK*VLKGLLNGILSYTEHLIVSSDFNGDTHSSTFDAGTGITLS
ParentalDTFVKLISWYDNEYGYSNRVVDLLRYMFSR
D.FV.LI.......GYS.RV.DL....FS.
RetrocopyDHFVRLIA*DNSKFGYSYRVMDLVTQIFSK

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






Otolemur garnettii was not studied using RNA-Seq expression data.
Otolemur garnettii was not studied using ChIP-Seq data.
Otolemur garnettii was not studied using EST data.
Otolemur garnettii was not studied using FANTOM5 data.
retro_ogar_355 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 5 parental genes, and 45 retrocopies.

Species Parental gene accession Retrocopies number
Mus musculus ENSMUSG000000610992 retrocopies
Otolemur garnettii ENSOGAG00000009491 25 retrocopies
Petromyzon marinus ENSPMAG000000093211 retrocopy
Pan troglodytes ENSPTRG000000108481 retrocopy
Tupaia belangeri ENSTBEG0000000861716 retrocopies



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