RetrogeneDB ID:

retro_ogar_2408

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873620.1:5132896..5133819(+)
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:ENSOGAG00000010008
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ogar_2408
AGTCTTGTGCCTCCTCTTTCCTTTCAACAAGGACAGATGCCCCTGTGTCCTTCTTCAAGGACTTCCTGGCAGGTGGGGTG
GCCGCAGCCATTTCCAAGACCACGGTAGTGCCCACTGAGCGACTCAAGCTGCTGCTGCAGGTACAGCATGCCAGCAAGCA
AATCACCGTAGGTAAGCAATACGAGGGCATCATAGACTGTGTGGTCCGGATCCCCAGGGAGCAGTCAATCCTGTCCTTCT
GGCGTGGTGACCTGGCCAATGTCATCTGACACTTCATCACTCAGGTTCTCAACTTTGCCTTCATAGATAAATATAAGCAG
ATCTTCCTGGGTGATGTGGACAAGAGGTCCCAGTTTTGGCGCCACTTTTCAGGGAATCTGCCATCAGGCGGTGCTGCTGG
GGCTACATCCTTGTGTTTTGTGTACCCTCTTGATTTTGTTCGTACCCATCTAGCAGCTGATGTGGGTAAAGCTAGAGCAA
AAAGGGAATTCAGAGGCCTTGGTGACTGTCTAATTAAGATCTACAATTCTGATGGGTTAGGGCCCTGTACCAAGGCTTTA
ACGTGTCTGTCCAGGGTATTATCATCTACCAAGCTGCCTACTTTGGTTATCTGTGACACTGCAAAGGGAATGCTTCCAGA
TCCCAGGAATACTCACATCATCATCAGTTGGATGATTGCACAGTCAGCCACTGCTGTTGCTGGGTTGACCTCCTATCCAT
TTGACACTGTTCACCATTGCATGATGATGCAGTCAGTGCGCAAAGGAACTGGCATCATGTACACCGGAGCAACTGACTGC
TGGAGGAAGATCCTGCGTGATGAAGGAGGCAAAGCTTTTTTCAAGGGTGCATGATCCAGTGTCCTCAGAGGCGTGGGTGG
TGCTTTTGTGCTTGTCTTATATGATGAAATCAAGAAGTACACG

ORF - retro_ogar_2408 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.28 %
Parental protein coverage: 96.85 %
Number of stop codons detected: 2
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalSRVPPLS-FNM-TDAAVSFIKDFLAGGVAAAISKTAVAPIERVKLLLQVQHASKQITADKQYKGIIDCVV
S.VPPLS.FN..TDA.VSF.KDFLAGGVAAAISKT.V.P.ER.KLLLQVQHASKQIT..KQY.GIIDCVV
RetrocopySLVPPLS>FNK>TDAPVSFFKDFLAGGVAAAISKTTVVPTERLKLLLQVQHASKQITVGKQYEGIIDCVV
ParentalRIPKEQGVLSFWRGNLANVIRYFPTQALNFAFKDKYKQIFLGGVDKRTQFWRYFAGNLASGGAAGATSLC
RIP.EQ..LSFWRG.LANVI..F.TQ.LNFAF.DKYKQIFLG.VDKR.QFWR.F.GNL.SGGAAGATSLC
RetrocopyRIPREQSILSFWRGDLANVI*HFITQVLNFAFIDKYKQIFLGDVDKRSQFWRHFSGNLPSGGAAGATSLC
ParentalFVYPLDFARTRLAADVGKAGAEREFKGLGDCLVKIYKSDGL-RGLYQGFNVSVQGIIIYRAAYFG-IYDT
FVYPLDF.RT.LAADVGKA.A.REF.GLGDCL.KIY.SDGL.R.LYQGFNVSVQGIIIY.AAYFG.I.DT
RetrocopyFVYPLDFVRTHLAADVGKARAKREFRGLGDCLIKIYNSDGL<RALYQGFNVSVQGIIIYQAAYFG>ICDT
ParentalAKGMLPDPKNTHIIVSWMIAQSVTAVAGLTSYPFDTVRRRMMMQSGRKGTDIMYTGTVDCWRKILRDEGG
AKGMLPDP.NTHII.SWMIAQS.TAVAGLTSYPFDTV...MMMQS.RKGT.IMYTG..DCWRKILRDEGG
RetrocopyAKGMLPDPRNTHIIISWMIAQSATAVAGLTSYPFDTVHHCMMMQSVRKGTGIMYTGATDCWRKILRDEGG
ParentalKAFFKGAWSNVLRGMGGAFVLVLYDEIKKYT
KAFFKGA.S.VLRG.GGAFVLVLYDEIKKYT
RetrocopyKAFFKGA*SSVLRGVGGAFVLVLYDEIKKYT

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_2408 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 94 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000001431 retrocopy
retro_amel_1291,
Canis familiaris ENSCAFG000000183842 retrocopies
retro_cfam_1473, retro_cfam_1641,
Callithrix jacchus ENSCJAG000000051251 retrocopy
retro_cjac_373,
Dasypus novemcinctus ENSDNOG000000083841 retrocopy
retro_dnov_1894,
Echinops telfairi ENSETEG000000049002 retrocopies
retro_etel_23, retro_etel_48,
Felis catus ENSFCAG000000070572 retrocopies
retro_fcat_1035, retro_fcat_127,
Homo sapiens ENSG000000050227 retrocopies
retro_hsap_2243, retro_hsap_3132, retro_hsap_3336, retro_hsap_3516, retro_hsap_3715, retro_hsap_3730, retro_hsap_4239,
Gorilla gorilla ENSGGOG000000142798 retrocopies
retro_ggor_1673, retro_ggor_1674, retro_ggor_2146, retro_ggor_2377, retro_ggor_2512, retro_ggor_2517, retro_ggor_2840, retro_ggor_941,
Loxodonta africana ENSLAFG000000293981 retrocopy
retro_lafr_844,
Microcebus murinus ENSMICG000000027573 retrocopies
retro_mmur_322, retro_mmur_411, retro_mmur_974,
Myotis lucifugus ENSMLUG000000157424 retrocopies
retro_mluc_139, retro_mluc_1580, retro_mluc_2564, retro_mluc_86,
Macaca mulatta ENSMMUG000000226636 retrocopies
retro_mmul_1022, retro_mmul_1287, retro_mmul_1699, retro_mmul_1775, retro_mmul_1800, retro_mmul_2090,
Mus musculus ENSMUSG000000163194 retrocopies
retro_mmus_1173, retro_mmus_1955, retro_mmus_2589, retro_mmus_459,
Nomascus leucogenys ENSNLEG000000148527 retrocopies
retro_nleu_131, retro_nleu_1314, retro_nleu_1383, retro_nleu_1679, retro_nleu_2253, retro_nleu_2560, retro_nleu_3105,
Oryctolagus cuniculus ENSOCUG0000001326811 retrocopies
retro_ocun_1002, retro_ocun_1233, retro_ocun_1457, retro_ocun_1694, retro_ocun_1705, retro_ocun_1862, retro_ocun_1877, retro_ocun_1890, retro_ocun_1932, retro_ocun_610, retro_ocun_708,
Otolemur garnettii ENSOGAG000000009632 retrocopies
retro_ogar_2492, retro_ogar_2499,
Otolemur garnettii ENSOGAG00000010008 7 retrocopies
retro_ogar_1131, retro_ogar_1275, retro_ogar_1669, retro_ogar_2161, retro_ogar_2408 , retro_ogar_2450, retro_ogar_2474,
Pongo abelii ENSPPYG000000206695 retrocopies
retro_pabe_1006, retro_pabe_2587, retro_pabe_3130, retro_pabe_3141, retro_pabe_3398,
Pteropus vampyrus ENSPVAG000000149242 retrocopies
retro_pvam_1118, retro_pvam_911,
Rattus norvegicus ENSRNOG0000003998011 retrocopies
retro_rnor_1242, retro_rnor_1364, retro_rnor_1475, retro_rnor_1612, retro_rnor_1904, retro_rnor_1922, retro_rnor_2533, retro_rnor_2758, retro_rnor_721, retro_rnor_722, retro_rnor_723,
Ictidomys tridecemlineatus ENSSTOG000000204383 retrocopies
retro_itri_314, retro_itri_532, retro_itri_868,
Tupaia belangeri ENSTBEG000000060084 retrocopies
retro_tbel_1558, retro_tbel_1860, retro_tbel_4654, retro_tbel_4661,


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