RetrogeneDB ID:

retro_ogar_1257

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873540.1:13674227..13675038(-)
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:ENSOGAG00000014924
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ogar_1257
TTTCCAGACATGAAGTCATCTGCCTCATGAGACAAGATTATCATCATGTGGAAGTTGACCCAGGATGACACTAACTTTGC
ACTCTACCGCTCTCTCTGCAGGGTGACATCCACTTTGTTAGTAATGTAGTCAGTCTCCTCAGATGGCCGGTTTGCCTTCT
TGGGCTCTGAGGATGGAACCCTGCACCTCTGGGTTTTCACAACAGGCACCAGCATGCTACAATTTGTGAGTCCTACCAAG
GATGTGCTTTAGTGAAGCCTTTCCCTCTGACAACCAGCTGATGATCTCTGGATCACAAGATAAAACAATGGGGTTATGCA
ATAACTAGGTATGTACACACACACTGTCTGGGATGAGAGCCACTCAGAGTCGGTGTCTTGTGTCTGCTTCTTGTCCAATA
GCAGAAGCACTATTATCATCTCCTGTGGCCAGACCAAGCTGGCCAAGGTGTGGAATCTGGCTAACTGTAAGCTGAAGACA
ACCAACTACATTGCCCATACAAACTATCTGCACACTGGTCCTGTGTCTCTAGATGATCTCTCTGTGAGCATGGAGTCAAG
AATGTCCAGGCCATGTGATGGGATTGCAAAGAAGGAAGCACCTCGATACACTCAGTGGTGGTGAAGTCATCAGCGGCCTG
TGCTTTAACCCTAACTGCTACTTGCTCTGCATTGCTGTCAGTCCCAGCATCAAGATTTAGGACTTGAAGGGTAAGATCAT
CATGGATGAACTAAAGCAAGAAGTTAGCAGTACAAGCGACAAGGCAGTGCACCCCTCTGGCCTGTCTGCTGATGTCCAGG
CTCTGATGGCT

ORF - retro_ogar_1257 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 60.85 %
Parental protein coverage: 86.44 %
Number of stop codons detected: 3
Number of frameshifts detected 6


Retrocopy - Parental Gene Alignment:

ParentalFPDMILSASRDKTIIMWKLTRDETNYGIPQR-ALRGHSHFVSDVV-ISSDGQFALSGSWDGTLRLWDLTT
FPDM..SAS.DK.IIMWKLT.D.TN........L.G..HFVS.VV..SSDG.FA..GS.DGTL.LW..TT
RetrocopyFPDMKSSAS*DKIIIMWKLTQDDTNFALYRS<SLQGDIHFVSNVV>VSSDGRFAFLGSEDGTLHLWVFTT
ParentalGTTTRRFVGHTKDVL-SVAFSSDNRQIVSGSRDKTIKLWNT-LGVCKYTVQDESHSEWVSCVRFSPNSSN
GT....FV..TKDVL.S.AF.SDN....SGS.DKT..L.N..LG....TV.DESHSE.VSCV.F..NS..
RetrocopyGTSMLQFVSPTKDVL>SEAFPSDNQLMISGSQDKTMGLCNN<LGMYTHTVWDESHSESVSCVCFLSNSRS
ParentalPIIVSCGWDKLVKVWNLANCKLK-TNHIGHTGYLNTVTVSPDG-SLCASGGKDGQAMLWDLNEG-KHLYT
.II.SCG..KL.KVWNLANCKLK.TN.I.HT.YL.T..VS.D..SLC..G.K..QAM.WD..EG.KHL.T
RetrocopyTIIISCGQTKLAKVWNLANCKLKTTNYIAHTNYLHTGPVSLDD<SLCEHGVKNVQAM*WDCKEG<KHLDT
ParentalLDGGDIINALCFSPNRYWLCAATGPSIKIWDLEGKIIVDELKQEVISTSSKAEPPQCTSLAWSADGQTLF
L.GG..I..LCF.PN.Y.LC.A..PSIKI.DL.GKII.DELKQEV.STS.KA..P...S....AD.Q.L.
RetrocopyLSGGEVISGLCFNPNCYLLCIAVSPSIKI*DLKGKIIMDELKQEVSSTSDKAVHPSGLS----ADVQALM
ParentalA
A
RetrocopyA

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_1257 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 26 parental genes, and 37 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000120081 retrocopy
retro_acar_185,
Ailuropoda melanoleuca ENSAMEG000000000041 retrocopy
retro_amel_1627,
Bos taurus ENSBTAG000000196481 retrocopy
retro_btau_1461,
Canis familiaris ENSCAFG000000248181 retrocopy
retro_cfam_1824,
Callithrix jacchus ENSCJAG000000187521 retrocopy
retro_cjac_2876,
Cavia porcellus ENSCPOG000000087241 retrocopy
retro_cpor_687,
Dipodomys ordii ENSDORG000000107351 retrocopy
retro_dord_117,
Equus caballus ENSECAG000000225673 retrocopies
retro_ecab_172, retro_ecab_218, retro_ecab_986,
Erinaceus europaeus ENSEEUG000000087291 retrocopy
retro_eeur_368,
Echinops telfairi ENSETEG000000160243 retrocopies
retro_etel_1135, retro_etel_114, retro_etel_2086,
Homo sapiens ENSG000002046281 retrocopy
retro_hsap_3226,
Gorilla gorilla ENSGGOG000000253671 retrocopy
retro_ggor_2194,
Macropus eugenii ENSMEUG000000110553 retrocopies
retro_meug_1095, retro_meug_1109, retro_meug_1532,
Myotis lucifugus ENSMLUG000000155071 retrocopy
retro_mluc_811,
Macaca mulatta ENSMMUG000000036041 retrocopy
retro_mmul_1956,
Monodelphis domestica ENSMODG000000040911 retrocopy
retro_mdom_1426,
Mustela putorius furoENSMPUG000000011482 retrocopies
retro_mputfur_1103, retro_mputfur_1111,
Mus musculus ENSMUSG000000203721 retrocopy
retro_mmus_3282,
Nomascus leucogenys ENSNLEG000000026041 retrocopy
retro_nleu_729,
Ornithorhynchus anatinus ENSOANG000000026001 retrocopy
retro_oana_127,
Otolemur garnettii ENSOGAG00000014924 2 retrocopies
retro_ogar_1257 , retro_ogar_1591,
Pongo abelii ENSPPYG000000199391 retrocopy
retro_pabe_149,
Pan troglodytes ENSPTRG000000227341 retrocopy
retro_ptro_2178,
Rattus norvegicus ENSRNOG000000023903 retrocopies
retro_rnor_1831, retro_rnor_2130, retro_rnor_895,
Ictidomys tridecemlineatus ENSSTOG000000070631 retrocopy
retro_itri_1752,
Tupaia belangeri ENSTBEG000000146612 retrocopies
retro_tbel_3897, retro_tbel_3899,


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