RetrogeneDB ID:

retro_ogar_1843

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873569.1:1542009..1542543(-)
Located in intron of:ENSOGAG00000011137
Retrocopy
information
Ensembl ID:ENSOGAG00000007217
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:B4USW9_OTOGA
Ensembl ID:ENSOGAG00000003205
Aliases:None
Description:High-mobility group box 1 (Predicted) [Source:UniProtKB/TrEMBL;Acc:B4USW9]


Retrocopy-Parental alignment summary:






>retro_ogar_1843
GTGGGCAAAGGAGACCGTAAGATGCCGAGAGGCAAAATGTCATCACACACATTCTTTGTGCAAACTAGTCGGGAGGAGCA
CAAGAAGCAGCACTCAGATGCTTCAGTCAACTTCTCAGAGTTGTCTAAGAAGCGCTCAGAGAGGAGGAAGACCACGTCTG
CTAAAGAGAAAGGAAAATTTGAAGACATGGCAAAGGCAGACAAGGCCCGTTATGAAAGAGAAATGAAAACCTATATCCCT
CCTAAAGGGGAAACCAAAAAGAAGTTCAAGGATCCCAATGCACCCAAGAGGCTTCCTTCGGCCTTTTCCTTGTTCTGTTC
TGAGTATCGCCCCCAAATCAAAGGAGAACATCCCGGCCTGTCCATTGGTGTTGTTCCAAAGAAGCTGGGAGAGATGTGGA
ATAACACTGCTGTGGATGACAAGCAGCCTCATGAAAAGACGGCTGCAAAGCTGAAGGAAAAATACGAAAAGGATATTGCT
GCATACCGAGCTAAAGGAAAGCCTGATGCAGCAAAAAAGGGAGTTGTCAAGGCT

ORF - retro_ogar_1843 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.76 %
Parental protein coverage: 84.76 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKAR
.GKGD.K.PRGKMSS..FFVQT.REEHKK.H.DASVNFSE.SKK.SER.KT.SAKEKGKFEDMAKADKAR
RetrocopyVGKGDRKMPRGKMSSHTFFVQTSREEHKKQHSDASVNFSELSKKRSERRKTTSAKEKGKFEDMAKADKAR
ParentalYEREMKTYIPPKGETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADD
YEREMKTYIPPKGETKKKFKDPNAPKR.PSAF.LFCSEYRP.IKGEHPGLSIG.V.KKLGEMWNNTA.DD
RetrocopyYEREMKTYIPPKGETKKKFKDPNAPKRLPSAFSLFCSEYRPQIKGEHPGLSIGVVPKKLGEMWNNTAVDD
ParentalKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAKKGVVKA
KQP.EK.AAKLKEKYEKDIAAYRAKGKPDAAKKGVVKA
RetrocopyKQPHEKTAAKLKEKYEKDIAAYRAKGKPDAAKKGVVKA

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Otolemur garnettii was not studied using RNA-Seq expression data.
Otolemur garnettii was not studied using ChIP-Seq data.
Otolemur garnettii was not studied using EST data.
Otolemur garnettii was not studied using FANTOM5 data.
retro_ogar_1843 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 24 parental genes, and 354 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000088807 retrocopies
Bos taurus ENSBTAG000000181032 retrocopies
Canis familiaris ENSCAFG0000000659713 retrocopies
Choloepus hoffmanni ENSCHOG0000000242316 retrocopies
Callithrix jacchus ENSCJAG0000002161511 retrocopies
Cavia porcellus ENSCPOG000000039851 retrocopy
Echinops telfairi ENSETEG0000000404818 retrocopies
Homo sapiens ENSG0000018940337 retrocopies
Gorilla gorilla ENSGGOG0000002676423 retrocopies
Loxodonta africana ENSLAFG000000002694 retrocopies
Macropus eugenii ENSMEUG000000013802 retrocopies
Myotis lucifugus ENSMLUG0000002597917 retrocopies
Macaca mulatta ENSMMUG000000233993 retrocopies
Monodelphis domestica ENSMODG0000000923814 retrocopies
Oryctolagus cuniculus ENSOCUG0000002133516 retrocopies
Otolemur garnettii ENSOGAG0000000177319 retrocopies
Otolemur garnettii ENSOGAG00000003205 104 retrocopies
retro_ogar_1008, retro_ogar_1043, retro_ogar_106, retro_ogar_1133, retro_ogar_123, retro_ogar_1232, retro_ogar_1296, retro_ogar_1299, retro_ogar_1330, retro_ogar_1386, retro_ogar_1398, retro_ogar_1399, retro_ogar_1421, retro_ogar_1423, retro_ogar_1424, retro_ogar_1431, retro_ogar_1461, retro_ogar_1560, retro_ogar_1571, retro_ogar_1585, retro_ogar_1597, retro_ogar_1600, retro_ogar_1607, retro_ogar_1628, retro_ogar_163, retro_ogar_1664, retro_ogar_1698, retro_ogar_17, retro_ogar_172, retro_ogar_1738, retro_ogar_1758, retro_ogar_1781, retro_ogar_1843 , retro_ogar_1844, retro_ogar_1861, retro_ogar_1867, retro_ogar_1878, retro_ogar_1894, retro_ogar_1896, retro_ogar_198, retro_ogar_1991, retro_ogar_2136, retro_ogar_2165, retro_ogar_219, retro_ogar_2282, retro_ogar_2318, retro_ogar_2319, retro_ogar_2352, retro_ogar_2385, retro_ogar_2403, retro_ogar_2429, retro_ogar_2436, retro_ogar_2458, retro_ogar_250, retro_ogar_2559, retro_ogar_2598, retro_ogar_2615, retro_ogar_2618, retro_ogar_2730, retro_ogar_2777, retro_ogar_2778, retro_ogar_2814, retro_ogar_2824, retro_ogar_2836, retro_ogar_284, retro_ogar_2845, retro_ogar_2891, retro_ogar_2894, retro_ogar_2906, retro_ogar_2961, retro_ogar_3008, retro_ogar_3018, retro_ogar_3028, retro_ogar_304, retro_ogar_311, retro_ogar_3136, retro_ogar_317, retro_ogar_320, retro_ogar_3208, retro_ogar_3230, retro_ogar_3325, retro_ogar_3330, retro_ogar_3355, retro_ogar_3374, retro_ogar_3500, retro_ogar_422, retro_ogar_435, retro_ogar_511, retro_ogar_542, retro_ogar_547, retro_ogar_634, retro_ogar_663, retro_ogar_698, retro_ogar_716, retro_ogar_772, retro_ogar_778, retro_ogar_8, retro_ogar_835, retro_ogar_890, retro_ogar_904, retro_ogar_912, retro_ogar_918, retro_ogar_92, retro_ogar_933,
Otolemur garnettii ENSOGAG000000171493 retrocopies
Otolemur garnettii ENSOGAG000000321471 retrocopy
Rattus norvegicus ENSRNOG000000298131 retrocopy
Sorex araneus ENSSARG0000000447014 retrocopies
Sarcophilus harrisii ENSSHAG000000140342 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000000044319 retrocopies
Tarsius syrichta ENSTSYG000000063287 retrocopies



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