RetrogeneDB ID: retro_ogar_2262

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873607.1:4126888..4127227(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000029832
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ENSA
• Ensembl ID: ENSOGAG00000005863
• Aliases: None
• Description: endosulfine alpha [Source:HGNC Symbol;Acc:3360]

Sequence

>retro_ogar_2262
TCCCAGAAACAAGAAGGTGAGAACCAGGCAGAGGAGACTGGCGAGGAGAAGCAGGACATGCTGGAGGAAGGAGGTGTTCT
CCCTGAGAGGGCTGAGGCAGCAAAGCCAAAGGCCAGATATCCAAGCCCAGCACACAACCCTGGAGGGGCCGACTTCCTCG
TCAGAAGATTCCAGATGGGGCAAAAGTACACAGACTCAGGAGACCACAAGTGGCCAAAGTCTAGATGAAGACTAAGCAGC
TTCCATGTACAGGACCAGACAAGAACCTCGGGATGATGACCACATCCCCAAGCTACGGAATCTGCTCCAGAGAAAATCCT
CACTGTCACCAGCCAGCTT

Alignment

ORF - retro_ogar_2262 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.67 %
• Parental protein coverage: 98.28 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SQKQEEENHAEETGEEKQDTQEKEGILPERAEEAKLKAKYPSLGQKPGGSDFLMKRLQKGQKYFDSGDY-
          SQKQE.EN.AEETGEEKQD..E..G.LPERAE.AK.KA.YPS....PGG.DFL..R.Q.GQKY.DSGD..
Retrocopy SQKQEGENQAEETGEEKQDMLEEGGVLPERAEAAKPKARYPSPAHNPGGADFLVRRFQMGQKYTDSGDH<

Parental  NMAKAKMKNKQLPSTGPDKNL-VTGDHIPTPQDLPQRKSSL-VTSKL
          ..AK..MK.KQLP.TGPDKNL....DHIP....L.QRKSSL.VTS.L
Retrocopy QVAKV*MKTKQLPCTGPDKNL<RDDDHIPKLRNLLQRKSSL<VTSQL

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_2262 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 7 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000143420	3 retrocopies	retro_hsap_1449, retro_hsap_2208, retro_hsap_2452,
Mus musculus	ENSMUSG00000038619	1 retrocopy	retro_mmus_2675,
Oryctolagus cuniculus	ENSOCUG00000003267	3 retrocopies	retro_ocun_296, retro_ocun_396, retro_ocun_722,
Otolemur garnettii	ENSOGAG00000005863	3 retrocopies	retro_ogar_1769, retro_ogar_1911, retro_ogar_2262 ,
Otolemur garnettii	ENSOGAG00000013865	1 retrocopy	retro_ogar_591,
Pongo abelii	ENSPPYG00000000893	2 retrocopies	retro_pabe_1803, retro_pabe_2081,
Rattus norvegicus	ENSRNOG00000048617	1 retrocopy	retro_rnor_1776,