RetrogeneDB ID: retro_ogar_2638

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873642.1:6338022..6338708(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TEAD2
• Ensembl ID: ENSOGAG00000010067
• Aliases: None
• Description: TEA domain family member 2 [Source:HGNC Symbol;Acc:11715]

Sequence

>retro_ogar_2638
CCAGGGTATTGGTCCACTTAACCCCTCTCACCCCTGCCTCTATCTGCCCCATTACCCCAAGCCTGGCAGGCTTGCACCCT
GGGCACTACCTGGTTGTAGCTAGTAGAGTTCTCAGGCTGTGTGGAACTGCCAAATGCACCTGATTCACACCAGAGGCACC
TGTTTGTACATATCACCCAGCATTGCCCCAGCCCTGGAGTCCCTCCACTTGAGAGTGTGGATGTCCAGCAGATCAATTAC
ACATTTACTGAGAAAAAAGTGGTCTTCAAGAACTAAAGATCATGGCTTACCTCACATCTTTTTCCTGGTCAAGTTCTGGG
CAGACCTGAACTGAGGCCCAAGTGGTGAGAAGGCCAGGGCTAGGAGTGGCAGCAGCAGTAACCGTGGTGGCTTTGACAGA
TGAGCAGCCAGTATGAGAGCCTGTGGCACATGACCCTCACATGCTCCTCCAAGGTCTGCTCTTTTGGCAAGCAGGTGGTG
GAGAAGGTGGAGACAGAGTGGGCCCAGTTAGAGGACAGAGATTTGTGTACTGCCTGTTGTGCTCGCCCCTCTGGGAGTAC
CTAGTGAATTTCCTACACTAGTTGTGGTAGTTGGCTGAGTGATACATGATGAACAACATCCTTGAAAACTTCACCATCCT
CCAGGTGATGACAAACAGAGACATCCAGGAATTTCTGCTGTGTACC

Alignment

ORF - retro_ogar_2638 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.65 %
• Parental protein coverage: 51.22 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  PGYEASQSLSPLPPPAPSPPAWQARALGTARLQLVEFSAFVEPPDAVDSYQRHLFVHISQHCPSPGAPPL
          PGY.....LSPLP..AP.P.AWQA..LGT..L.LVEFS..VE.P.A.DS.QRHLFVHI.QHCPSPG.PPL
Retrocopy PGYWST*PLSPLPLSAPLPQAWQACTLGTTWL*LVEFSGCVELPNAPDSHQRHLFVHITQHCPSPGVPPL

Parental  ESVDVRQIYDKFPEK-KGGLREL-YDRGPPHAFFLVKFWADLNWGPSGEEAGAGSGSNSSSGGFY-GVSS
          ESVDV.QI...F.EK.K.GL.EL..D.G.PH.FFLVKFWADLN.GPSGE.A.A.SGS.S..GGF....SS
Retrocopy ESVDVQQINYTFTEK<KSGLQEL<KDHGLPHIFFLVKFWADLN*GPSGEKARARSGSSSNRGGFD<QMSS

Parental  QYESLEHMTLTCSSKVCSFGKQVVEKVETERAQLED-GRFVYRLLRSPMCEYLVNFLHKLRQLPERYMMN
          QYESL.HMTLTCSSKVCSFGKQVVEKVETE.AQLED..RFVY.LL.SP..EYLVNFLH.L..L.E.YMMN
Retrocopy QYESLWHMTLTCSSKVCSFGKQVVEKVETEWAQLED<QRFVYCLLCSPLWEYLVNFLH*LW*LAE*YMMN

Parental  SVLENFTILQVVTNRDTQELLLCT
          ..LENFTILQV.TNRD.QE.LLCT
Retrocopy NILENFTILQVMTNRDIQEFLLCT

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_2638 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000016184	1 retrocopy	retro_lafr_1143,
Otolemur garnettii	ENSOGAG00000010067	2 retrocopies	retro_ogar_2638 , retro_ogar_3448,
Rattus norvegicus	ENSRNOG00000020695	1 retrocopy	retro_rnor_1929,