RetrogeneDB ID: retro_ogar_2503

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873629.1:3916106..3916642(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EMC8
• Ensembl ID: ENSOGAG00000010372
• Aliases: None
• Description: ER membrane protein complex subunit 8 [Source:HGNC Symbol;Acc:7864]

Sequence

>retro_ogar_2503
ATGTCCAGGATGAAGCTGATCACTCAGGCCTACTGCAAGACAGTACTGCACAGTGCATAGTACTACTATGCCGTCAATGG
ACTCCTGTTGGCTGAGAAGCAGAAGCCGTGCAAGGAGCACCACCCCTGGGCGGCCTGGGCACCCACCACACCCTCTTTGT
GGACTGTATCCCCCTCTTCCATGGCACACTGGCCCTCGCCTTCATGCTGGAGGTGGCTCTCACCCTGATTGATTCATAGA
ACAAATATAATAGCTATGTGATTGTTGGCTATTGCCAAGCTAATGAACGAGTGAAGGATGCCAGTCCCAACCATGTTGCA
GAGAAGGTGGCGTCCAGAATCTTTGAGGGCTTCAGCAACATAGCTCTCATCATGATGGACAACACCAAGTTTACGATGGA
CTGCACAGCACCTACGATCCACGTGTACGAGCACCATAAAAATAGGTGGCGGTACAGGAACCCACATCATGACTACTGCG
AAGACTGGCCAGAGGCACAGAGGATCTTTGTGTTGCTTCTGGACCGCTGGTCCTAC

Alignment

ORF - retro_ogar_2503 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.11 %
• Parental protein coverage: 85.71 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MPGVKLTTQAYCKMVLHGAKYPHCAVNGLLVAEKQKPRKEHLP-LGGPGAHHTLFVDCIPLFHGTLALAP
          M...KL.TQAYCK.VLH.A.Y...AVNGLL.AEKQKP.KEH.P.LGG.G.HHTLFVDCIPLFHGTLALA.
Retrocopy MSRMKLITQAYCKTVLHSA*Y-YYAVNGLLLAEKQKPCKEHHP<LGGLGTHHTLFVDCIPLFHGTLALAF

Parental  MLEVALTLIDSWCKDNSYVIAGYYQANERVKDASPNQVAEKVASRIAEGFSDTALIMVDNTKFTMDCVAP
          MLEVALTLIDS..K.NSYVI.GY.QANERVKDASPN.VAEKVASRI.EGFS..ALIM.DNTKFTMDC.AP
Retrocopy MLEVALTLIDS*NKYNSYVIVGYCQANERVKDASPNHVAEKVASRIFEGFSNIALIMMDNTKFTMDCTAP

Parental  TIHVYEHHENRWRCRDPHHDYCEDWPEAQRILASLLDSRSY
          TIHVYEHH.NRWR.R.PHHDYCEDWPEAQRI...LLD..SY
Retrocopy TIHVYEHHKNRWRYRNPHHDYCEDWPEAQRIFVLLLDRWSY

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_2503 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 6 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000019922	1 retrocopy	retro_cfam_2117,
Callithrix jacchus	ENSCJAG00000017312	1 retrocopy	retro_cjac_675,
Erinaceus europaeus	ENSEEUG00000011856	1 retrocopy	retro_eeur_44,
Macropus eugenii	ENSMEUG00000009360	5 retrocopies	retro_meug_1050, retro_meug_1386, retro_meug_636, retro_meug_709, retro_meug_97,
Monodelphis domestica	ENSMODG00000004596	1 retrocopy	retro_mdom_163,
Otolemur garnettii	ENSOGAG00000010372	1 retrocopy	retro_ogar_2503 ,