RetrogeneDB ID:

retro_ogar_2805

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873665.1:3242430..3243620(-)
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:ENSOGAG00000004441
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ogar_2805
ATCATGGACAGATCAAAAGAAAACTACATTTCAGGGCCTGTTCCACTTGATGGTCCAAAATGGTTCCAGTGATCCAGCAG
TTTTCTGGAAGGTTAGAATCCAGTACCTGCAAGTTGTGGTCAGGCTCAGTGGGTCCTGTGCCCTTCAGATTCCTCCCAGC
GCATTCCTTCTCAAGCACAAAAGCTTATCTCCAGCCACAAACCAGTTCAGAATCATACGCAGAAGCAATTACAGGCAACC
AGTGTACTTCATCCTGTCTCTAAGCCACTGAATGACACCCAGAAGAGCAAGCAGCCCAGCCAGCAGCACCTGGAAATAAT
CCTGAGGAAGAAGTGACATCAAAACAGAAAAACGAAGAATCACAAAAAAGGCAATGGGCTTTGGAAGGTTTTGAAATTGG
TTGCCAGCTGGGTAAAGGAAAGTTTGGTAATGTTTATTTGGCAAGAAAAAAACAAAGCAAGTTTATCCTGGCTCTGAAAG
TGCTGTTTAAAGCTCAGCTGGAAAAAGCAGGAGCGGAGCATCAGCTCAGACGAGAAGTGGAAATCCAGTCCCATCCTCGG
CATCCGAATATTCTCAGACTGTATGGTCATTTCCATGATGCCACCAGAGTTTACCTAATTTTAGAATATGCACCACTTGG
AACAGTCTGTAGAGAACTTCAGAAACTTTCTAAATTTGATGAGCAGAGAACAGCTACGTGTATCACAGAACTGGCAAATG
CCCTGTCTTACTGCCATTCAAAGAGAGTTGTTCATAAAGACATTAAGCCAGAGAACTTGCTGCTGGGATCATCTGGAGAG
CTTGATTGCAGATTTGGGCCGGTCGGTTCATGCTCCGTCCTCCAGGAGAACCACTTTCTGTGTACCCTGGACTACCTGCC
CCCTGTGATGATTGAAGGTTGAATGTATGATGAGAAGGTAGACCTCTGGAGCCTGGGAGTTCTTTGCTATGAATTTTTAG
TTGGGAAGCCTCCTTTAGAGGCAAAATACCAAGGGACCAACAAAAGAATATCAAGGATTGAATTCACGTTTCCTGAGTTT
GTAACAGAGGGAGCCAGAGACCTTATTTCAGGACTGTTGAAGCATAATCCAAGCCAGAGCCTGATTCTCAGAGAAGTTCT
TGAACACCCCTGGATCAAAGCAAATTCATCAAAACCATCAAGTAGCCAAAACAAAGAATCAAATAACAAA

ORF - retro_ogar_2805 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.98 %
Parental protein coverage: 99.01 %
Number of stop codons detected: 3
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalIMDRSKENYISGPIKAAVPLDGPKRVPVTQQF-SGQNPLPASSGQAPWVLCPSNSSQRIPSQAQKLISSH
IMDRSKENYISGP....VPLDGPK.......F..G.NP.PAS.GQA.WVLCPS.SSQRIPSQAQKLISSH
RetrocopyIMDRSKENYISGP----VPLDGPKWFQ*SSSFLEG*NPVPASCGQAQWVLCPSDSSQRIPSQAQKLISSH
ParentalKPVQNHTQKQLQATSIPHPVSKPLNDTQKSKQ-LQPAAPGNNREEEVTSKQKNEESKKRQWALEDFEIGR
KPVQNHTQKQLQATS..HPVSKPLNDTQKSKQ..QPAAPGNN.EEEVTSKQKNEES.KRQWALE.FEIG.
RetrocopyKPVQNHTQKQLQATSVLHPVSKPLNDTQKSKQ<AQPAAPGNNPEEEVTSKQKNEESQKRQWALEGFEIGC
ParentalPLGKGKFGNVYLAREKQSKFILALKVLFKAQLEKAGVEHQLRREVEIQSHLRHPNILRLYGYFHDATRVY
.LGKGKFGNVYLAR.KQSKFILALKVLFKAQLEKAG.EHQLRREVEIQSH.RHPNILRLYG.FHDATRVY
RetrocopyQLGKGKFGNVYLARKKQSKFILALKVLFKAQLEKAGAEHQLRREVEIQSHPRHPNILRLYGHFHDATRVY
ParentalLILEYAPLGTVYRELQKLAKFDEQRTATYITELANALSYCHSKRVIHRDIKPENLLLGSSG-ELKIADFG
LILEYAPLGTV.RELQKL.KFDEQRTAT.ITELANALSYCHSKRV.H.DIKPEN.LL..S..E..IAD.G
RetrocopyLILEYAPLGTVCRELQKLSKFDEQRTATCITELANALSYCHSKRVVHKDIKPEN-LLLGSS>ESLIADLG
ParentalWSVHAPSSRRTTLCG-TLDYLPPEMIEGRMHDEKVDLWSLGVLCYEFLVGKPPFEANTYQETYRRISRIE
.SVHAPSSRRTT.C..TLDYLPP.MIEG.M.DEKVDLWSLGVLCYEFLVGKPP.EA..YQ.T..RISRIE
RetrocopyRSVHAPSSRRTTFCV<TLDYLPPVMIEG*MYDEKVDLWSLGVLCYEFLVGKPPLEAK-YQGTNKRISRIE
ParentalFTFPEFVTEGARDLISRLLKHNPSQRLTLREVLEHPWIKANSSKPSSSQNKESNSK
FTFPEFVTEGARDLIS.LLKHNPSQ.L.LREVLEHPWIKANSSKPSSSQNKESN.K
RetrocopyFTFPEFVTEGARDLISGLLKHNPSQSLILREVLEHPWIKANSSKPSSSQNKESNNK

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_2805 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 19 parental genes, and 38 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000293313 retrocopies
retro_cfam_1027, retro_cfam_257, retro_cfam_764,
Choloepus hoffmanni ENSCHOG000000059768 retrocopies
retro_chof_1302, retro_chof_1575, retro_chof_1709, retro_chof_2213, retro_chof_2389, retro_chof_259, retro_chof_565, retro_chof_764,
Cavia porcellus ENSCPOG000000066331 retrocopy
retro_cpor_106,
Felis catus ENSFCAG000000244931 retrocopy
retro_fcat_495,
Homo sapiens ENSG000000875861 retrocopy
retro_hsap_510,
Gorilla gorilla ENSGGOG000000071971 retrocopy
retro_ggor_470,
Myotis lucifugus ENSMLUG000000079251 retrocopy
retro_mluc_1931,
Macaca mulatta ENSMMUG000000000701 retrocopy
retro_mmul_431,
Mus musculus ENSMUSG000000274961 retrocopy
retro_mmus_2825,
Nomascus leucogenys ENSNLEG000000070291 retrocopy
retro_nleu_1553,
Otolemur garnettii ENSOGAG000000009996 retrocopies
retro_ogar_1122, retro_ogar_1159, retro_ogar_1240, retro_ogar_1293, retro_ogar_2384, retro_ogar_923,
Otolemur garnettii ENSOGAG00000004441 3 retrocopies
retro_ogar_2805 , retro_ogar_3440, retro_ogar_980,
Pongo abelii ENSPPYG000000111481 retrocopy
retro_pabe_231,
Pan troglodytes ENSPTRG000000136461 retrocopy
retro_ptro_381,
Rattus norvegicus ENSRNOG000000044792 retrocopies
retro_rnor_664, retro_rnor_670,
Sus scrofa ENSSSCG000000074931 retrocopy
retro_sscr_936,
Ictidomys tridecemlineatus ENSSTOG000000119582 retrocopies
retro_itri_366, retro_itri_772,
Tupaia belangeri ENSTBEG000000132842 retrocopies
retro_tbel_1137, retro_tbel_2604,
Tarsius syrichta ENSTSYG000000092211 retrocopy
retro_tsyr_378,


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