RetrogeneDB ID: retro_ogar_2145

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873596.1:9015090..9015571(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000013335
• Aliases: None
• Description: None

Sequence

>retro_ogar_2145
GCCATGCTCAAGATCAGCTCTTGGAATGTGGATGGGCTTCCGTCCTGATCAAGAAGAAAGGATTTAATTGAGTTAAGGAA
GAAGCCCTGTATATCCTGTGCCTCCAAGAGACCAAATGTGTTTAGAGAACAAACTACCACTGAACTTCAAGAGCTGGCTG
GACTATCCCATCAGCACTGGTCAGCTCTTTCAGACAAGGAAGGTACAGTGGTATGGGCCTACTTTCCCGTTACTGCCCAC
TTCAAGTCTCTTATGGCGTTGGTGAGGAGGACCAATGTCGGGAAGGATGGGTGATTGTGGCTGAATTTAACAAGTTTGTG
CCGGTAACAGCCTATGCCCCTAATGCAGGCTGTGGCTGGTGCAACTGGAGTACCGGCAGCAGTGGGAAGAAGCCTTTCCC
AAGTTCCTGAAGGGCTTGGCTTCCCCCAAAGCCCTTGTGCTGTATGGAGGTTTCAGCGTGGCTCATGAGGAACTTGACCT
T

Alignment

ORF - retro_ogar_2145 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.3 %
• Parental protein coverage: 50.63 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  ATLKICSWNVDGLRA-WIKKKGLDWVKEEAPDILCLQETKC-SENKLPTELQDLPGLSHQYWSAPSDKEG
          A.LKI.SWNVDGL....IKKKG...VKEEA..ILCLQETKC.......TELQ.L.GLSHQ.WSA.SDKEG
Retrocopy AMLKISSWNVDGLPS<LIKKKGFN*VKEEALYILCLQETKC>FREQTTTELQELAGLSHQHWSALSDKEG

Parental  -YSGVGLLSRQCPLKVSYGIGEEEHDQEGRVIVAEFDKFVLVTAYVPNAGRG-LVRLEYRQRWDEAFRKF
          .YSG.GLLSR.CPL.VSYG.GEE....EG.VIVAEF.KFV.VTAY.PNAG.G.LV.LEYRQ.W.EAF.KF
Retrocopy <YSGMGLLSRYCPLQVSYGVGEEDQCREGWVIVAEFNKFVPVTAYAPNAGCG<LVQLEYRQQWEEAFPKF

Parental  LKGLTSQKPLVLCGDLNVAHEEIDL
          LKGL.S.K.LVL.G...VAHEE.DL
Retrocopy LKGLASPKALVLYGGFSVAHEELDL

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_2145 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 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000002745	1 retrocopy	retro_btau_1729,
Echinops telfairi	ENSETEG00000004855	1 retrocopy	retro_etel_1392,
Loxodonta africana	ENSLAFG00000021872	1 retrocopy	retro_lafr_948,
Mus musculus	ENSMUSG00000035960	2 retrocopies	retro_mmus_2027, retro_mmus_433,
Otolemur garnettii	ENSOGAG00000013335	3 retrocopies	retro_ogar_1284, retro_ogar_2145 , retro_ogar_3243,
Rattus norvegicus	ENSRNOG00000009663	1 retrocopy	retro_rnor_2971,
Ictidomys tridecemlineatus	ENSSTOG00000010096	1 retrocopy	retro_itri_1560,
Tupaia belangeri	ENSTBEG00000006405	1 retrocopy	retro_tbel_3409,