RetrogeneDB ID:

retro_ogar_2717

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873653.1:645995..646724(-)
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:ENSOGAG00000002501
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ogar_2717
TCATGGAGGGATCCAAGATCAACTCGAGCAAGAATCAGCGGGATGACGGCCTGCACAACTAACACAGATCCAGTCACTGG
AAAATCAGGACGATTTGGATTTGCGCTTTTCAAAGATGCTGCTAGTGTTGATAAGGTTTGGGAACTGAAAGAACACAAAC
TGGATGGCAAATTGATAGACCCCAAAAGAGCCAACGCTTTAAAAGGGAAAGAGCCCCCAGAAAGGTTTTTGTGGGAGGAC
TGAGCCCAGATACTTCTGAAGAACAAATTAAAGAATATTTTGGAGGCTTTGGAGGACTGGAAATATTGAACTTCCCAGGG
ATAGAAAAACAAATGAAAGGAGAGGATTTTGCTCTATCACATACACAGAGGAAGAGCCCGTAAAGAAATTGTCAGAAAGC
AGATACCATCAAATTGGTTCTGGGAAGCGTGAAATCAAAATTGCACAGCCCAAAGAAGTATATAGGCGGCAGCAGAAACA
GGAAGGGGGAAGAGGTTCTGCAGCCAGTGGATGAGGGGGATTAGGGGTGGAGGCCAAGGTCAAGGCCAAAACTAGAACCA
AGGATTTAATAACTATTATGACCAAGGATATGGAAATTACCATAGTGCCTAGGGTGGTGATCGAAACTATAGTGGCTATG
GTGGATGTGATTCTACTGGGTATAACTGGGAACTGCGGATATGGACAGATGGACAGGAATATGCAGGCTCCAGTGGTCAA
CAGAGCACG

ORF - retro_ogar_2717 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.39 %
Parental protein coverage: 57.66 %
Number of stop codons detected: 3
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalSKKDLTEYLSRFGEVVDCTIKTDPVTGRSRGFGFVLFKDAASVDKVLELKEHKLDGKLIDPKRAKALKGK
S..D......R......CT..TDPVTG.S..FGF.LFKDAASVDKV.ELKEHKLDGKLIDPKRA.ALKGK
RetrocopySWRDPRSTRARISGMTACTTNTDPVTGKSGRFGFALFKDAASVDKVWELKEHKLDGKLIDPKRANALKGK
ParentalEP-PKKVFVGGLSPDTSEEQIKEYFGAFGEIE-NIELPMDTKTNERRGFCFITYTDEEPVKKLLESRYHQ
EP.P.KVFVGGLSPDTSEEQIKEYFG.FG..E.NIELP.D.KTNERRGFC.ITYT.EEPVKKL.ESRYHQ
RetrocopyEP<PRKVFVGGLSPDTSEEQIKEYFGGFGGLE<NIELPRDRKTNERRGFCSITYTEEEPVKKLSESRYHQ
ParentalIGSGKCEIKVAQPKEVYRQQQQQQKGGRGAASSGRG-GTRGRGRGQGQNWNQGFNNYYDQGYGNYNNAYG
IGSGK.EIK.AQPKEVYR.QQ.Q..GGRG.A.SG.G.G.RG.G.GQGQN.NQGFNNYYDQGYGNY..A.G
RetrocopyIGSGKREIKIAQPKEVYRRQQKQE-GGRGSAASG*G<GIRGGGQGQGQN*NQGFNNYYDQGYGNYHSA*G
ParentalG--GYSGYGGCDYTGYNYGNYGYGQG--YADYSGQQST
G...YSGYGGCD.TGYN........G..YA..SGQQST
RetrocopyGDRNYSGYGGCDSTGYNWELRIWTDGQEYAGSSGQQST

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_2717 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 32 parental genes, and 94 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000148042 retrocopies
retro_btau_1827, retro_btau_461,
Canis familiaris ENSCAFG000000089401 retrocopy
retro_cfam_1086,
Choloepus hoffmanni ENSCHOG000000001608 retrocopies
retro_chof_115, retro_chof_1470, retro_chof_2108, retro_chof_2370, retro_chof_533, retro_chof_59, retro_chof_741, retro_chof_890,
Choloepus hoffmanni ENSCHOG000000032752 retrocopies
retro_chof_1578, retro_chof_18,
Callithrix jacchus ENSCJAG000000151971 retrocopy
retro_cjac_2589,
Cavia porcellus ENSCPOG000000156195 retrocopies
retro_cpor_1110, retro_cpor_1318, retro_cpor_264, retro_cpor_274, retro_cpor_567,
Dasypus novemcinctus ENSDNOG000000038877 retrocopies
retro_dnov_1175, retro_dnov_1182, retro_dnov_144, retro_dnov_1603, retro_dnov_31, retro_dnov_723, retro_dnov_930,
Dipodomys ordii ENSDORG000000009681 retrocopy
retro_dord_145,
Equus caballus ENSECAG000000226921 retrocopy
retro_ecab_1082,
Felis catus ENSFCAG000000004551 retrocopy
retro_fcat_1568,
Loxodonta africana ENSLAFG000000086121 retrocopy
retro_lafr_650,
Macropus eugenii ENSMEUG000000114547 retrocopies
retro_meug_1252, retro_meug_1378, retro_meug_1491, retro_meug_1971, retro_meug_2165, retro_meug_249, retro_meug_766,
Microcebus murinus ENSMICG000000014454 retrocopies
retro_mmur_1016, retro_mmur_1570, retro_mmur_1572, retro_mmur_557,
Myotis lucifugus ENSMLUG000000144522 retrocopies
retro_mluc_1140, retro_mluc_1761,
Monodelphis domestica ENSMODG000000119166 retrocopies
retro_mdom_1496, retro_mdom_1789, retro_mdom_1951, retro_mdom_2017, retro_mdom_546, retro_mdom_981,
Mustela putorius furoENSMPUG000000147532 retrocopies
retro_mputfur_1359, retro_mputfur_600,
Nomascus leucogenys ENSNLEG000000086361 retrocopy
retro_nleu_673,
Oryctolagus cuniculus ENSOCUG000000138051 retrocopy
retro_ocun_505,
Otolemur garnettii ENSOGAG00000002501 4 retrocopies
retro_ogar_2717 , retro_ogar_2791, retro_ogar_437, retro_ogar_693,
Otolemur garnettii ENSOGAG000000153533 retrocopies
retro_ogar_1384, retro_ogar_3077, retro_ogar_3189,
Otolemur garnettii ENSOGAG000000259483 retrocopies
retro_ogar_1685, retro_ogar_3010, retro_ogar_3175,
Otolemur garnettii ENSOGAG000000281327 retrocopies
retro_ogar_1869, retro_ogar_1924, retro_ogar_2222, retro_ogar_2590, retro_ogar_3215, retro_ogar_600, retro_ogar_814,
Otolemur garnettii ENSOGAG000000297073 retrocopies
retro_ogar_1721, retro_ogar_205, retro_ogar_2321,
Otolemur garnettii ENSOGAG000000302512 retrocopies
retro_ogar_3509, retro_ogar_385,
Ochotona princeps ENSOPRG000000071783 retrocopies
retro_opri_1075, retro_opri_623, retro_opri_703,
Procavia capensis ENSPCAG000000115431 retrocopy
retro_pcap_366,
Rattus norvegicus ENSRNOG000000022701 retrocopy
retro_rnor_1365,
Sorex araneus ENSSARG000000099611 retrocopy
retro_sara_421,
Sarcophilus harrisii ENSSHAG000000136163 retrocopies
retro_shar_297, retro_shar_527, retro_shar_625,
Ictidomys tridecemlineatus ENSSTOG000000139791 retrocopy
retro_itri_1177,
Tupaia belangeri ENSTBEG000000028177 retrocopies
retro_tbel_2079, retro_tbel_2283, retro_tbel_2608, retro_tbel_2874, retro_tbel_3344, retro_tbel_4302, retro_tbel_4405,
Tursiops truncatus ENSTTRG000000017932 retrocopies
retro_ttru_1486, retro_ttru_744,


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