RetrogeneDB ID:

retro_ogar_2637

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873642.1:6169663..6170422(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOGAG00000027486
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOGAG00000008348
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ogar_2637
GTGGATGACAATATTGCTGCGCTCATGCTTGACAACAGCTCCAGCATGTGCAAGGCCAGTTTCATGGGTGACGATGCCCC
CCCAGGCTGTCTTCCCTTCCCTCATCAGGCTCCCGCAGCACCAGAGCATGATCGTAGGCTTGGGCCAGGACTCGTATGTG
GGCAATGAGGTCCAGAGCAAGAGAGGCACGCTGACCCTGAGGTACCTCATTGAGCACAGCATTGTCACCAACTGGGATGA
GATGGAGCAAATACGGCACCACACTTTCTACAACGAGTTCTGTCTGACCACAGAGAAGCACACTGTGCTGCTGACTGAAG
CCCCCCTGAACCCCAAGGCCAACCATGAGAAGATGATGCAGATTATGTTGGAGACCTTCAACACTCCAGCAGTGTGTATG
GCCGTCCAGGTTATGCTGTCCCTGTATGCCTCTGGCCACACCACTGGCATCGTGATGGACTCGGGTGATGGGTCACCCAC
ATTGTGCCCATCTATAGGGGTATACCCTCCCCCAGGCCCTCTTATGTCTGGACCTGGTTGGCTGGGACCTTAAAGACTAC
CTCATGAAGACCCTCACAGAGTGTGGCTACAGCTTCACCACCATGGCCAGTGGGAAATTGTGCCTGACATCAAGGAGAAG
CTGTGTTATATCACCCTGAACTTCAAGCAAGAGATGGCCACAGCAGCCTCCAGCTCCTCCCTGGAGAAGAGCTATGAGCT
CCCGATGGCCAGGTGATCACCATCAGAAATGAGCAGTTC

ORF - retro_ogar_2637 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 72.31 %
Parental protein coverage: 68.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 5


Retrocopy - Parental Gene Alignment:

ParentalMDDDIAALVVDNGSGMCKAGFAGDDAP-RAVFPSIVGRPRHQGVMVGMGQKDSYVGDEAQSKRGILTLKY
.DD.IAAL..DN.S.MCKA.F.GDDAP..AVFPS....P.HQ...VG.GQ.DSYVG.E.QSKRG.LTL.Y
RetrocopyVDDNIAALMLDNSSSMCKASFMGDDAP>QAVFPSLIRLPQHQSMIVGLGQ-DSYVGNEVQSKRGTLTLRY
ParentalPIEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQAV
.IEH.IVTNWD.ME.I.HHTFYNE.....E.H.VLLTEAPLNPKAN.EKM.QIM.ETFNTPA...A.Q..
RetrocopyLIEHSIVTNWDEMEQIRHHTFYNEFCLTTEKHTVLLTEAPLNPKANHEKMMQIMLETFNTPAVCMAVQVM
ParentalLSLYASGRTTGIVMDSGDG-VTHTVPIYE-GYALPHAILRLDLAGRDLTDYLMKILTQRGYSFTTTA-ER
LSLYASG.TTGIVMDSGDG.VTH.VPIY..GY.LP.A.L.LDL.G.DL.DYLMK.LT..GYSFTT.A...
RetrocopyLSLYASGHTTGIVMDSGDG<VTHIVPIYR<GYTLPQALLCLDLVGWDLKDYLMKTLTECGYSFTTMA<QW
ParentalEIVRDIKEKLCYVALDFEQEMATAASSSSLEKSYEL-PDGQVITIGNERF
EIV.DIKEKLCY..L.F.QEMATAASSSSLEKSYEL.PDGQVITI.NE.F
RetrocopyEIVPDIKEKLCYITLNFKQEMATAASSSSLEKSYEL<PDGQVITIRNEQF

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_2637 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 28 parental genes, and 128 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000066011 retrocopy
retro_amel_11,
Anas platyrhynchos ENSAPLG000000101471 retrocopy
retro_apla_2,
Canis familiaris ENSCAFG000000160203 retrocopies
retro_cfam_120, retro_cfam_260, retro_cfam_934,
Callithrix jacchus ENSCJAG000000000082 retrocopies
retro_cjac_243, retro_cjac_56,
Cavia porcellus ENSCPOG000000134671 retrocopy
retro_cpor_60,
Dipodomys ordii ENSDORG000000100791 retrocopy
retro_dord_11,
Equus caballus ENSECAG000000159352 retrocopies
retro_ecab_271, retro_ecab_994,
Felis catus ENSFCAG000000067881 retrocopy
retro_fcat_1613,
Homo sapiens ENSG000000756246 retrocopies
retro_hsap_1563, retro_hsap_1894, retro_hsap_3386, retro_hsap_38, retro_hsap_4204, retro_hsap_518,
Gallus gallus ENSGALG000000096211 retrocopy
retro_ggal_4,
Gorilla gorilla ENSGGOG0000000113318 retrocopies
retro_ggor_1177, retro_ggor_1188, retro_ggor_1211, retro_ggor_1266, retro_ggor_1297, retro_ggor_1332, retro_ggor_1387, retro_ggor_1622, retro_ggor_1825, retro_ggor_1890, retro_ggor_2292, retro_ggor_2774, retro_ggor_2817, retro_ggor_3002, retro_ggor_352, retro_ggor_405, retro_ggor_44, retro_ggor_477,
Loxodonta africana ENSLAFG000000091671 retrocopy
retro_lafr_116,
Meleagris gallopavo ENSMGAG000000039602 retrocopies
retro_mgal_5, retro_mgal_6,
Macaca mulatta ENSMMUG000000111531 retrocopy
retro_mmul_135,
Mustela putorius furoENSMPUG000000166122 retrocopies
retro_mputfur_440, retro_mputfur_461,
Mus musculus ENSMUSG000000295807 retrocopies
retro_mmus_1613, retro_mmus_1677, retro_mmus_283, retro_mmus_2880, retro_mmus_3411, retro_mmus_3532, retro_mmus_761,
Ornithorhynchus anatinus ENSOANG000000077162 retrocopies
retro_oana_4, retro_oana_8,
Otolemur garnettii ENSOGAG000000080403 retrocopies
retro_ogar_148, retro_ogar_1808, retro_ogar_2430,
Otolemur garnettii ENSOGAG00000008348 1 retrocopy
retro_ogar_2637 ,
Petromyzon marinus ENSPMAG000000041611 retrocopy
retro_pmar_4,
Pongo abelii ENSPPYG0000001733623 retrocopies
retro_pabe_1281, retro_pabe_1292, retro_pabe_1575, retro_pabe_1610, retro_pabe_1772, retro_pabe_1816, retro_pabe_1911, retro_pabe_2042, retro_pabe_2168, retro_pabe_2175, retro_pabe_2188, retro_pabe_227, retro_pabe_2754, retro_pabe_2811, retro_pabe_2824, retro_pabe_2862, retro_pabe_2978, retro_pabe_309, retro_pabe_3563, retro_pabe_3567, retro_pabe_3746, retro_pabe_745, retro_pabe_86,
Pan troglodytes ENSPTRG0000001889027 retrocopies
retro_ptro_1042, retro_ptro_1051, retro_ptro_1076, retro_ptro_1143, retro_ptro_1272, retro_ptro_1515, retro_ptro_1756, retro_ptro_178, retro_ptro_2122, retro_ptro_2173, retro_ptro_2349, retro_ptro_2454, retro_ptro_263, retro_ptro_2805, retro_ptro_2854, retro_ptro_314, retro_ptro_3207, retro_ptro_3219, retro_ptro_3282, retro_ptro_3287, retro_ptro_3292, retro_ptro_3302, retro_ptro_3307, retro_ptro_387, retro_ptro_432, retro_ptro_53, retro_ptro_584,
Rattus norvegicus ENSRNOG0000003425410 retrocopies
retro_rnor_1324, retro_rnor_1386, retro_rnor_1799, retro_rnor_2371, retro_rnor_2714, retro_rnor_2856, retro_rnor_2978, retro_rnor_351, retro_rnor_459, retro_rnor_935,
Sarcophilus harrisii ENSSHAG000000126944 retrocopies
retro_shar_120, retro_shar_370, retro_shar_62, retro_shar_93,
Sus scrofa ENSSSCG000000075851 retrocopy
retro_sscr_548,
Ictidomys tridecemlineatus ENSSTOG000000068682 retrocopies
retro_itri_1675, retro_itri_531,
Ictidomys tridecemlineatus ENSSTOG000000147973 retrocopies
retro_itri_149, retro_itri_1881, retro_itri_4,
Xenopus tropicalis ENSXETG000000251161 retrocopy
retro_xtro_6,


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