RetrogeneDB ID:

retro_ogar_367

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873520.1:6435456..6436759(-)
Located in intron of:ENSOGAG00000000765
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOGAG00000032343
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ogar_367
ATGGGTCAAAATCAGAGTGGTGGCCATGGTCCTGGAGGTGGCAAGAAGGATGACAAGAATAAGAAAAAGAAATATGAACC
TCCTGTACCAACCAGAGTGGGGAAAAAGAAGAAGAAAACAAAGGGACCAGATGTAGCCAGTAAACTACCACTGGTGACAC
CTCACACTCAGTGCTGATTAAAATTGTTGAAGTTAGAATTAAAGACTATTCTTCTTATGGAGGAAGAATTCATTAGAAAT
CAGGAACAAATGAAACCATTGTAGGAAAAGCAAGAGGACGAAAGATCAAAAGTGGAAGATCTGAGAGGAACCCCAATGTC
AGTAGGAACCTTGGAAGAGATCATTGATGACAGTCATGCCATCGTGTCCACCTCTGTGGGCTCAGAACACTGTGTCAGCA
TCCTTTCATTTGTAGACAAGGATCTGCTGGAACCAGGCTGTTCGGTCCTGCTCATCCACAAGGTGCATGTTGTGATAGGA
GTGTTGATGGATGACACAGATCCTCTGTTCACAGTGATGAAGGTGGAAAAGGCACCCCAGGAAACCTATGCTGATATTGG
GGGCTTGGACAAACAAATCTAGGAAATTAAGGAATCTGTGGAGCTTCCTCTCGCCCATCCTAAATATTATGAAGAGATGG
GTATAAAGCCCCCTAAAGGGGTCATTCTCTATGATCTGCCCGGCACAGGTAAAACCTTGTTAGCCACAGCAGTAGCAAAC
CAAACATCAGCCACTTTCTTGAGAGTGGTTGGCTCTGAACTCATTCAGAAGGACCTAGGTGATGGGCCCAGACTTGTTCG
GGAATTGTTTGAAGTTACTGAAGAACATGCACATTCCATTGTGTTTATTGGTGAAATTTATGCCATTGGGACAAAAAGAT
ATGACTCAAATTCTGGTGGTGAGAGAGAAATTCAGCGGACAATGTTGGAACTGTTGAACCAGTTGGATGGATTTGATTCA
AAGGGAGATGTGAAAGTTATGGCTACAAACCAAATAGAAACTTTGGATCCAGCTCTTATCAGACCAGGCTGCATTGACAG
GAAGATAGAGTTTCCCCTGACTGATGAAAAGACTAAGAAGCACATATTTGATTCACACAAGCAGGATGACCCTGGCTGAT
GATGTAACGCTGGATGACTTGATCATGGCTAAAGATGACCTCTCTGGTGCTGCCATTAAGGCAATTTGTACAGAAGCTGG
TCTGATGGCCTTAAGAGAACGTAGAATGAAAGTAACAAATGAAGACTTCAAAAAATCTAAAGAAAATGTTCTGTATAAAA
AACAAGAAGGCACCCCTGAGGGG

ORF - retro_ogar_367 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.28 %
Parental protein coverage: 99.32 %
Number of stop codons detected: 3
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalMGQSQSGGHGPGGGKKDDKDKKKKYEPLVLTRVGKKKKKTKGPGAASKLPLVTPHNQCRLKLLKLERIKD
MGQ.QSGGHGPGGGKKDDK.KKKKYEP.V.TRVGKKKKKTKGP..ASKLPLVTPH.QC.LKLLKLE..K.
RetrocopyMGQNQSGGHGPGGGKKDDKNKKKKYEPPVPTRVGKKKKKTKGPDVASKLPLVTPHTQC*LKLLKLE-LKT
ParentalYLLMEEEFIRNQEQMKPLQEKQEEERSKVDDLRGTPMSVGTLEEIIDHNDAIVSTSVDSEHYVSILSFVD
.LLMEEEFIRNQEQMKPL.EKQE.ERSKV.DLRGTPMSVGTLEEIID...AIVSTSV.SEH.VSILSFVD
RetrocopyILLMEEEFIRNQEQMKPL*EKQEDERSKVEDLRGTPMSVGTLEEIIDDSHAIVSTSVGSEHCVSILSFVD
ParentalKDLLEQGCSVLLKHKVHAVIGVLMDDTDPLVTVMKVEKAPQEIYADFRGLDNQMQEIKESVEIPLTHPEY
KDLLE.GCSVLL.HKVH.VIGVLMDDTDPL.TVMKVEKAPQE.YAD..GLD.Q..EIKESVE.PL.HP.Y
RetrocopyKDLLEPGCSVLLIHKVHVVIGVLMDDTDPLFTVMKVEKAPQETYADIGGLDKQI*EIKESVELPLAHPKY
ParentalYEEMSIKLPKGVILYGPPGTGKTSLAKVVANQTSATFLRVVGSDLIQKYLGDGPKLVWELFRVAEEHAPS
YEEM.IK.PKGVILY..PGTGKT.LA..VANQTSATFLRVVGS.LIQK.LGDGP.LV.ELF.V.EEHA.S
RetrocopyYEEMGIKPPKGVILYDLPGTGKTLLATAVANQTSATFLRVVGSELIQKDLGDGPRLVRELFEVTEEHAHS
ParentalIVFIDEIDAIGTKRYDSIS-GHREIQQTMLELLNQLDGFDSRGDVKVIMATNQIETLDPALIRPGHIDRK
IVFI.EI.AIGTKRYDS.S.G.REIQ.TMLELLNQLDGFDS.GDVKV.MATNQIETLDPALIRPG.IDRK
RetrocopyIVFIGEIYAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSKGDVKV-MATNQIETLDPALIRPGCIDRK
ParentalIEFPLPDEKTKKCIFQIH-TSRTTLADDVMLDDLIMAKDDLSGADIKAICTEAGLMALRERRMKVTNEDF
IEFPL.DEKTKK.IF..H....T...D....D......D.LSGA.IKAICTEAGLMALRERRMKVTNEDF
RetrocopyIEFPLTDEKTKKHIFDSH>SRMTLADDVTLDDLIMAKDD-LSGAAIKAICTEAGLMALRERRMKVTNEDF
ParentalKNCKENVLYKKQEGTPDG
K..KENVLYKKQEGTP.G
RetrocopyKKSKENVLYKKQEGTPEG

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_367 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 25 parental genes, and 101 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000018394 retrocopies
retro_amel_1536, retro_amel_1886, retro_amel_405, retro_amel_962,
Canis familiaris ENSCAFG000000175102 retrocopies
retro_cfam_1238, retro_cfam_1562,
Choloepus hoffmanni ENSCHOG000000135951 retrocopy
retro_chof_1954,
Callithrix jacchus ENSCJAG000000177017 retrocopies
retro_cjac_1152, retro_cjac_1537, retro_cjac_2417, retro_cjac_2433, retro_cjac_4219, retro_cjac_661, retro_cjac_678,
Cavia porcellus ENSCPOG000000024241 retrocopy
retro_cpor_144,
Dasypus novemcinctus ENSDNOG000000064581 retrocopy
retro_dnov_2162,
Equus caballus ENSECAG000000036011 retrocopy
retro_ecab_355,
Echinops telfairi ENSETEG000000026611 retrocopy
retro_etel_580,
Felis catus ENSFCAG000000113108 retrocopies
retro_fcat_1444, retro_fcat_1559, retro_fcat_2015, retro_fcat_344, retro_fcat_614, retro_fcat_691, retro_fcat_713, retro_fcat_924,
Homo sapiens ENSG0000010076410 retrocopies
retro_hsap_1090, retro_hsap_1278, retro_hsap_2080, retro_hsap_2658, retro_hsap_2810, retro_hsap_2873, retro_hsap_3323, retro_hsap_3416, retro_hsap_3793, retro_hsap_975,
Gorilla gorilla ENSGGOG000000106208 retrocopies
retro_ggor_1004, retro_ggor_1298, retro_ggor_1629, retro_ggor_1954, retro_ggor_1993, retro_ggor_2309, retro_ggor_780, retro_ggor_858,
Macropus eugenii ENSMEUG000000015261 retrocopy
retro_meug_623,
Microcebus murinus ENSMICG000000167337 retrocopies
retro_mmur_1039, retro_mmur_1063, retro_mmur_1245, retro_mmur_1577, retro_mmur_216, retro_mmur_839, retro_mmur_983,
Myotis lucifugus ENSMLUG000000074712 retrocopies
retro_mluc_2490, retro_mluc_508,
Macaca mulatta ENSMMUG000000229901 retrocopy
retro_mmul_255,
Mustela putorius furoENSMPUG000000081504 retrocopies
retro_mputfur_1602, retro_mputfur_409, retro_mputfur_654, retro_mputfur_815,
Mus musculus ENSMUSG000000211783 retrocopies
retro_mmus_1517, retro_mmus_1826, retro_mmus_812,
Nomascus leucogenys ENSNLEG0000001701310 retrocopies
retro_nleu_1123, retro_nleu_1163, retro_nleu_1589, retro_nleu_1625, retro_nleu_1669, retro_nleu_2318, retro_nleu_2625, retro_nleu_429, retro_nleu_616, retro_nleu_706,
Oryctolagus cuniculus ENSOCUG000000062314 retrocopies
retro_ocun_1135, retro_ocun_1212, retro_ocun_1654, retro_ocun_411,
Otolemur garnettii ENSOGAG00000032343 2 retrocopies
retro_ogar_3014, retro_ogar_367 ,
Pongo abelii ENSPPYG000000259489 retrocopies
retro_pabe_1059, retro_pabe_153, retro_pabe_2379, retro_pabe_2408, retro_pabe_2737, retro_pabe_2832, retro_pabe_3099, retro_pabe_825, retro_pabe_907,
Pan troglodytes ENSPTRG000000066239 retrocopies
retro_ptro_1530, retro_ptro_1904, retro_ptro_1944, retro_ptro_2153, retro_ptro_2321, retro_ptro_2573, retro_ptro_672, retro_ptro_742, retro_ptro_874,
Pteropus vampyrus ENSPVAG000000100203 retrocopies
retro_pvam_1190, retro_pvam_350, retro_pvam_500,
Ictidomys tridecemlineatus ENSSTOG000000016551 retrocopy
retro_itri_780,
Tursiops truncatus ENSTTRG000000135821 retrocopy
retro_ttru_239,


Copyright © RetrogeneDB 2014-2017