RetrogeneDB ID:

retro_ogar_2635

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873642.1:4950923..4951913(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOGAG00000007478
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ogar_2635
TACCAGCACTATAAAGGAAATGACATTGACTGCAAGTTGAGACTGTTGATTCATCAGAGTCTGGCAGGAGGAATTATTGG
GGTGAAAAGTGCTTAAATCAAAGAACTTTGAGAGAACACTCAAACATCAATCAAGCTGTTCCAGGAATGCTGTCCTCATT
CCAGTGACAGAGTCATTCTTATTGGAGAAAAACTTGATAGGGTCGTAGAGTTCATAAAGATCATCCTTGATCTTATATCT
GAGTCTCCCATCAAAGGATGTGCACAGCCTTATGATCCCAATTTTTATGATGAAACCTATGACTATGGTGGTTTTACAAT
GATGTTTGATGACCACTGTGGATAACCTGTGGGTTTCCCAGTGCAAGGAAGAGGTAGTTTTGACAGAATGCCTCCTGGTT
GGGGTGGGCGTCTTATGCCTCCATCTAGAAGAGATTAAGATGACATGAGCCCTCATAGAAGACCACCTCCCCCTCCTCCT
GGACGAGGCGGCCGGGGTGGTAGCAGAGCTCAGAATCTCCCTCTTCTTCCACCACCACCACCTAGAGGAGGAGATCTAAT
GGCCTATGACAGAAGAAGAAGACCTGGAGACCGTTAGGATGGAATGGTTCGTTTCAGTGCTGATGAAACTATCGATTCTG
CAATAGATACATGGAGCCCATCAGAATGGTGGATGGCATATGAACCACAGGGTGGCTCCAGATATGCTTATTCCTATGCA
GGGGGTCATAGCTCATATGGTGATCTTGGTGGACCTATTATTACTACACAAGTAACTATTCCCAAAGATTTGGCTGGATC
TATTATTGGCAAAGGTGGTCAGCAGATTAAACAAATCTGTCATGAGTCAGGAGCTTCCATCAAAATCAATGAGCCTTTAG
AAGGATCCAAAGATCGGATCATTACCATTACAGGAACACAGGACCAGATACAGAATGCACAGTATTTACTGCAGAAAAGT
GTGAAGCAGTAGGCAGATGTTGAAGGATTC

ORF - retro_ogar_2635 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.58 %
Parental protein coverage: 75.0 %
Number of stop codons detected: 6
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalYQHYKGSDFDCELRLLIHQSLAGGIIGVKGAKIKELRENTQTTIKLFQECCPHSTDRVVLIGGKPDRVVE
YQHYKG.D.DC.LRLLIHQSLAGGIIGVK.A.IKEL.ENTQT.IKLFQECCPHS.DRV.LIG.K.DRVVE
RetrocopyYQHYKGNDIDCKLRLLIHQSLAGGIIGVKSA*IKEL*ENTQTSIKLFQECCPHSSDRVILIGEKLDRVVE
ParentalCIKIILDLISESPIKGRAQPYDPNFYDETYDYGGFTMMFDDRRGRPVGFPMRGRGGFDRMPPGRGGRPMP
.IKIILDLISESPIKG.AQPYDPNFYDETYDYGGFTMMFDD..G.PVGFP..GRG.FDRMPPG.GGR.MP
RetrocopyFIKIILDLISESPIKGCAQPYDPNFYDETYDYGGFTMMFDDHCG*PVGFPVQGRGSFDRMPPGWGGRLMP
ParentalPSRRDYDDMSPRRGPPPPPPGRGGRGGSRARNLPLPPPPPPRGGDLMAYDRRGRPGDRYDGMVGFSADET
PSRRD.DDMSP.R.PPPPPPGRGGRGGSRA.NLPL.PPPPPRGGDLMAYDRR.RPGDR.DGMV.FSADET
RetrocopyPSRRD*DDMSPHRRPPPPPPGRGGRGGSRAQNLPLLPPPPPRGGDLMAYDRRRRPGDR*DGMVRFSADET
ParentalWDSAIDTWSPSEWQMAYEPQGGSGYDYSYAGGRGSYGDLGGPIITTQVTIPKDLAGSIIGKGGQRIKQIR
.DSAIDTWSPSEW.MAYEPQGGS.Y.YSYAGG..SYGDLGGPIITTQVTIPKDLAGSIIGKGGQ.IKQI.
RetrocopyIDSAIDTWSPSEWWMAYEPQGGSRYAYSYAGGHSSYGDLGGPIITTQVTIPKDLAGSIIGKGGQQIKQIC
ParentalHESGASIKIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVKQYADVEGF
HESGASIKI.EPLEGS.DRIITITGTQDQIQNAQYLLQ.SVKQ.ADVEGF
RetrocopyHESGASIKINEPLEGSKDRIITITGTQDQIQNAQYLLQKSVKQ*ADVEGF

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_2635 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 22 parental genes, and 50 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000211312 retrocopies
retro_btau_468, retro_btau_605,
Choloepus hoffmanni ENSCHOG000000108322 retrocopies
retro_chof_1023, retro_chof_1589,
Dasypus novemcinctus ENSDNOG000000000264 retrocopies
retro_dnov_1433, retro_dnov_1820, retro_dnov_2316, retro_dnov_2638,
Dipodomys ordii ENSDORG000000160241 retrocopy
retro_dord_673,
Homo sapiens ENSG000001651193 retrocopies
retro_hsap_2323, retro_hsap_2674, retro_hsap_3385,
Gorilla gorilla ENSGGOG000000155002 retrocopies
retro_ggor_1764, retro_ggor_1866,
Loxodonta africana ENSLAFG000000265671 retrocopy
retro_lafr_809,
Macropus eugenii ENSMEUG000000069753 retrocopies
retro_meug_271, retro_meug_357, retro_meug_484,
Microcebus murinus ENSMICG000000157803 retrocopies
retro_mmur_1562, retro_mmur_235, retro_mmur_448,
Myotis lucifugus ENSMLUG000000058712 retrocopies
retro_mluc_128, retro_mluc_561,
Macaca mulatta ENSMMUG000000188711 retrocopy
retro_mmul_2111,
Monodelphis domestica ENSMODG000000084021 retrocopy
retro_mdom_1666,
Mus musculus ENSMUSG000000215462 retrocopies
retro_mmus_1131, retro_mmus_2137,
Nomascus leucogenys ENSNLEG000000034863 retrocopies
retro_nleu_1178, retro_nleu_1815, retro_nleu_973,
Otolemur garnettii ENSOGAG00000007478 3 retrocopies
retro_ogar_2635 , retro_ogar_2966, retro_ogar_3086,
Pongo abelii ENSPPYG000000193273 retrocopies
retro_pabe_2105, retro_pabe_2106, retro_pabe_42,
Sarcophilus harrisii ENSSHAG000000171091 retrocopy
retro_shar_820,
Sus scrofa ENSSSCG000000227601 retrocopy
retro_sscr_437,
Tupaia belangeri ENSTBEG000000012891 retrocopy
retro_tbel_2491,
Tarsius syrichta ENSTSYG000000011963 retrocopies
retro_tsyr_1664, retro_tsyr_1796, retro_tsyr_2149,
Tursiops truncatus ENSTTRG000000049061 retrocopy
retro_ttru_1622,
Tursiops truncatus ENSTTRG000000166937 retrocopies
retro_ttru_1144, retro_ttru_180, retro_ttru_1922, retro_ttru_444, retro_ttru_813, retro_ttru_930, retro_ttru_937,


Copyright © RetrogeneDB 2014-2017