RetrogeneDB ID: retro_ogar_3243

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873753.1:2047..2638(+)
• 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_3243
ACCCCCCGTGGCAAATCTGCTACACTCCAGATTTGCTCTTGGAATGTGGATGGGCTTCAGGCCTGGATTAAGAAGAAAGG
ATTAGATTGAGTAAAGGAAAAAGCCCCAGATATCCTGTGTCTCCAAGAGACAAAATGTTCTAAGAACAAACTACCCACTG
AACTTCAAGAGCTGCCTGAATTAGCCCATCAGTGCTGGTCAGCTCCTTCAGACAAGGAAAGGTACAGTGGTGTGGGCCTA
CTTTCCTACCAGTGCCTATTCCTTCTTATGGCACTGATAAGGAGGAAGGAATATTATCAGGAAGGATGAGTGATTGTGGC
TGAATTTGACAAGTTTGTGCTGGTAACAGCCCATGTGCCTAATGCAGGCCATGGGCTAGAGTGACTGAAGTACAGGCAGT
GTTAGGATGAAGCCTTCTGCAAATTCCTAAAGGGCTTGACTTCCAAAAAGTCCCTTGTGCTGTGTGGAGATCTCACTGTG
GCTCATAAAGAAGTTGACTTTCACAACCCCAAGGGAAACAAAAAGTATGCTGCCTTCACTCCATAAGAATGCCAAGGCTT
TGGGGAATTGCTGCAAGCTGTGCAACTTTCA

Alignment

ORF - retro_ogar_3243 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.14 %
• Parental protein coverage: 61.95 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SPSGKSATLKICSWNVDGLRAWIKKKGLDWVKEEAPDILCLQETKCSENKLPTELQDLPGLSHQYWSAPS
          .P.GKSATL.ICSWNVDGL.AWIKKKGLD.VKE.APDILCLQETKCS.NKLPTELQ.LP.L.HQ.WSAPS
Retrocopy TPRGKSATLQICSWNVDGLQAWIKKKGLD*VKEKAPDILCLQETKCSKNKLPTELQELPELAHQCWSAPS

Parental  DKEGYSGVGLLSRQCPLKVSYGIGEEEHDQEGRVIVAEFDKFVLVTAYVPNAGRGLVRLEYRQRWDEAFR
          DKE.YSGVGLLS.QC.......I...E..QEG.VIVAEFDKFVLVTA.VPNAG.GL..L.YRQ..DEAF.
Retrocopy DKERYSGVGLLSYQCLFLLMALIRRKEYYQEG*VIVAEFDKFVLVTAHVPNAGHGLE*LKYRQC*DEAFC

Parental  KFLKGLTSQKPLVLCGDLNVAHEEIDLRNPKGNKKNAGFTPQERQGFGELLQAVPLA
          KFLKGLTS.K.LVLCGDL.VAH.E.D..NPKGNKK.A.FTP.E.QGFGELLQAV.L.
Retrocopy KFLKGLTSKKSLVLCGDLTVAHKEVDFHNPKGNKKYAAFTP*ECQGFGELLQAVQLS

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_3243 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,