RetrogeneDB ID: retro_ogar_2148

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873596.1:5903912..5904416(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AES
• Ensembl ID: ENSOGAG00000016151
• Aliases: None
• Description: amino-terminal enhancer of split [Source:HGNC Symbol;Acc:307]

Sequence

>retro_ogar_2148
CCCATGGCACACATCCAGGGCTCCTCACACCTACCCCCAACAACTCAAATTCACCACCTTGGACTCCTGAGTTGCAGTAA
AGATGAATTTCAGCTGCTGCAGACTCAGTATCACAGCCTACAGTTTGAATGTGACAAGCTGGCCAGGAAGAAGTTGGAGA
TGCAGTGTCACTATGTGATGTACTATGAGATGTTCTATGGCTTAAACATTGACATGCACAAGTAGGCTGAAATAGTCAAA
AGGCTGAATGGCATTTGTGCCTACATCCTGCCCTCTCTCTCCCAAGACCATTAGCAGCAGATCTTGGGAGCCATCGAGAG
GACTAAGCAGCTCACTGCTCCTGAGCTGAATTCCATCATCTGACAGCAGCTCCAAGCCCACTAGCTATCTCAGTTGCAGG
CTCTGGCCCTGCCTCTGACCCCATTGCCTGTGGGGTTATAGCCACCTTTGCTGCTAGCAGTCAGCTCAGGCACCAGTCTC
TTCTTGCTGTCCACGCTGGGCTCC

Alignment

ORF - retro_ogar_2148 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.47 %
• Parental protein coverage: 72.73 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PAGRQSGSSHLP-QQLKFTTSDSCDRIK-DEFQLLQAQYHSLKLECDKLASEKSEMQRHYVMYYEMSYGL
          P.....GSSHLP.QQLKFTT.DS....K.DEFQLLQ.QYHSL..ECDKLA..K.EMQ.HYVMYYEM.YGL
Retrocopy PMAHIQGSSHLP>QQLKFTTLDS*VAVK<DEFQLLQTQYHSLQFECDKLARKKLEMQCHYVMYYEMFYGL

Parental  NIEMHKQAEIVKRLNGICAQVLPYLSQEHQQQVLGAIERAKQVTAPELNSIIRQQLQAHQLSQLQALALP
          NI.MHK.AEIVKRLNGICA..LP.LSQ.H.QQ.LGAIER.KQ.TAPELNSII.QQLQAH.LSQLQALALP
Retrocopy NIDMHK*AEIVKRLNGICAYILPSLSQDH*QQILGAIERTKQLTAPELNSII*QQLQAH*LSQLQALALP

Parental  LTPLPVGLQPPSLPAVSAGTGLLSLSALGS
          LTPLPVGL.PP.L.AVS.GT.L..LS.LGS
Retrocopy LTPLPVGL*PPLLLAVSSGTSLFLLSTLGS

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_2148 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000031363	1 retrocopy	retro_btau_342,
Otolemur garnettii	ENSOGAG00000016151	2 retrocopies	retro_ogar_1674, retro_ogar_2148 ,
Pongo abelii	ENSPPYG00000009364	2 retrocopies	retro_pabe_1812, retro_pabe_2155,