RetrogeneDB ID: retro_ogar_1712

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873562.1:3421464..3422052(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000032147
• Aliases: None
• Description: None

Sequence

>retro_ogar_1712
ATAGGCAAAGGAGGTCCTAAGAAGCCAAGAGTCAAAATGCTGTCATAGGCATTCTTTGTGCAAACTTGCTGGGAGGAGCA
CAAGAAGCAGCACCCAGATGCTTCAGTCAATGTCTCAGAGTTTTCTAAGAAGTGCTCAGAGAAGTGGAAGACTATGTCTA
CTAAAGAGAAAGGAAAATTTGAAGATATGGCAAAGGCGGACAAGGCCTGTTACGAAAGAAAAATAAAAACCCATCTCCCT
CCTAAAGGGGAAACAAAAAAGAAGTTCAAGGATTCCAATGCGCCCAATAGGCCTCCTTCGGCCTTTTTCTTGTTCTGTTC
TGAGTATCGCCCCAAAATCAAAGGAGAACATCCCGGCCTATCCATTGGTGATGTTGCAGAGAAGCTAGACGTGGAATAAC
ACTGCTGTGGGTGACAAGCAGCCTGATGAAAAGAAGGCTGCAAAGCTGAAGGAAAAGTATGAAAAGGATATTGCTGCTTA
CTGAGCTAAAGGAAAGCCTGATGCAGCAATAAAGGGAGTTGTCAGGGCTGGAAAAAGCAAGAGAAAGAAGGAAGAGGATG
AGAGGAGGAAGAAGAAGAAGATGATGAT

Alignment

ORF - retro_ogar_1712 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.0 %
• Parental protein coverage: 99.0 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MGKGGPKKPRGKMLSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSEKWKTMSTKEKGKFEDMAKADKAH
          .GKGGPKKPR.KMLS.AFFVQTC.EEHKK.HPDASVN.SEFSKKCSEKWKTMSTKEKGKFEDMAKADKA.
Retrocopy IGKGGPKKPRVKMLS*AFFVQTCWEEHKKQHPDASVNVSEFSKKCSEKWKTMSTKEKGKFEDMAKADKAC

Parental  FEREMKTHIPPKGETKKKFKDSNAPKRTPSAFFLFCSEYHP-KIKGEHPGLSIGDVAKKRGETWNNTAVG
          .ER..KTH.PPKGETKKKFKDSNAP.R.PSAFFLFCSEY.P.K.K...P......V...R..TWNNTAVG
Retrocopy YERKIKTHLPPKGETKKKFKDSNAPNRPPSAFFLFCSEYRP>KSKENIPAYPL--VMLQRS*TWNNTAVG

Parental  DKQPDEKKAAKLKEKYEKDIAAYSAKGKPDAAKKGVVRAGKSKRKKEEEE-DEEEEEDED
          DKQPDEKKAAKLKEKYEKDIAAY.AKGKPDAA.KGVVRAGKSKRKKEE.E..EEEEED.D
Retrocopy DKQPDEKKAAKLKEKYEKDIAAY*AKGKPDAAIKGVVRAGKSKRKKEEDE<EEEEEEDDD

Legend:

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

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_1712 was not experimentally validated.

Homology

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.

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Parental genes homology:

Parental genes homology involve 15 parental genes, and 256 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000006597	13 retrocopies	retro_cfam_1088, retro_cfam_1102, retro_cfam_1387, retro_cfam_1628, retro_cfam_1765, retro_cfam_1831, retro_cfam_1980, retro_cfam_242, retro_cfam_280, retro_cfam_467, retro_cfam_495, retro_cfam_521, retro_cfam_528,
Choloepus hoffmanni	ENSCHOG00000002423	16 retrocopies	retro_chof_108, retro_chof_1130, retro_chof_1214, retro_chof_148, retro_chof_164, retro_chof_1708, retro_chof_1741, retro_chof_1764, retro_chof_1797, retro_chof_2155, retro_chof_2484, retro_chof_443, retro_chof_538, retro_chof_591, retro_chof_720, retro_chof_795,
Homo sapiens	ENSG00000189403	37 retrocopies	retro_hsap_1230, retro_hsap_1357, retro_hsap_1504, retro_hsap_1589, retro_hsap_1608, retro_hsap_176, retro_hsap_1832, retro_hsap_1954, retro_hsap_2103, retro_hsap_2192, retro_hsap_2219, retro_hsap_2228, retro_hsap_2340, retro_hsap_2490, retro_hsap_2552, retro_hsap_2613, retro_hsap_2660, retro_hsap_2858, retro_hsap_2947, retro_hsap_3317, retro_hsap_3340, retro_hsap_3592, retro_hsap_3615, retro_hsap_3666, retro_hsap_382, retro_hsap_3942, retro_hsap_4003, retro_hsap_4109, retro_hsap_4309, retro_hsap_4669, retro_hsap_470, retro_hsap_4738, retro_hsap_4832, retro_hsap_525, retro_hsap_554, retro_hsap_758, retro_hsap_933,
Gorilla gorilla	ENSGGOG00000026764	23 retrocopies	retro_ggor_1057, retro_ggor_1212, retro_ggor_1421, retro_ggor_1596, retro_ggor_1637, retro_ggor_1662, retro_ggor_1735, retro_ggor_1777, retro_ggor_1856, retro_ggor_1951, retro_ggor_1977, retro_ggor_213, retro_ggor_2422, retro_ggor_2441, retro_ggor_2478, retro_ggor_259, retro_ggor_2897, retro_ggor_3013, retro_ggor_388, retro_ggor_448, retro_ggor_483, retro_ggor_753, retro_ggor_964,
Loxodonta africana	ENSLAFG00000000269	4 retrocopies	retro_lafr_349, retro_lafr_512, retro_lafr_607, retro_lafr_685,
Macropus eugenii	ENSMEUG00000001380	2 retrocopies	retro_meug_1591, retro_meug_825,
Macaca mulatta	ENSMMUG00000023399	3 retrocopies	retro_mmul_2079, retro_mmul_320, retro_mmul_385,
Monodelphis domestica	ENSMODG00000009238	14 retrocopies	retro_mdom_1088, retro_mdom_1144, retro_mdom_1228, retro_mdom_1689, retro_mdom_1727, retro_mdom_1819, retro_mdom_2007, retro_mdom_2024, retro_mdom_3, retro_mdom_434, retro_mdom_548, retro_mdom_72, retro_mdom_760, retro_mdom_958,
Otolemur garnettii	ENSOGAG00000001773	19 retrocopies	retro_ogar_1318, retro_ogar_1647, retro_ogar_1728, retro_ogar_187, retro_ogar_1930, retro_ogar_204, retro_ogar_2076, retro_ogar_2530, retro_ogar_2591, retro_ogar_2678, retro_ogar_2743, retro_ogar_2983, retro_ogar_3127, retro_ogar_3371, retro_ogar_343, retro_ogar_3433, retro_ogar_3479, retro_ogar_3513, retro_ogar_65,
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	ENSOGAG00000017149	3 retrocopies	retro_ogar_3117, retro_ogar_3323, retro_ogar_3336,
Otolemur garnettii	ENSOGAG00000032147	1 retrocopy	retro_ogar_1712 ,
Rattus norvegicus	ENSRNOG00000029813	1 retrocopy	retro_rnor_421,
Sorex araneus	ENSSARG00000004470	14 retrocopies	retro_sara_131, retro_sara_182, retro_sara_259, retro_sara_293, retro_sara_302, retro_sara_342, retro_sara_378, retro_sara_402, retro_sara_47, retro_sara_564, retro_sara_576, retro_sara_613, retro_sara_655, retro_sara_765,
Sarcophilus harrisii	ENSSHAG00000014034	2 retrocopies	retro_shar_136, retro_shar_634,