RetrogeneDB ID: retro_meug_1050

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold27021:11042..11490(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EMC8
• Ensembl ID: ENSMEUG00000009360
• Aliases: None
• Description: ER membrane protein complex subunit 8 [Source:HGNC Symbol;Acc:7864]

Sequence

>retro_meug_1050
CCCCTCTTTGGGGACTGCATCTCCCTCTCCCACTCCACCCTGGTGCTGGCCCTCACCTTGATTGATTAATGGTGCAAAGA
TAATAGTTATATGATAGTTGGTTATTGTCAAGCTAATGAACATGTAAAAGATGCCTGTCCAAACCAGCTTTCTAAGAATG
TAGCTTCCAGAATGCAGAGGGCTCCAATGACACTGCATTCATCATAGCAGACAACATGAAGTTTATAATGGAGTGCATAG
AACCCACAATTCATGTGTATGAGTATCATGAAAACAAATGGTGGTGTAGAGATCCACACTATGGTTATTGTGAAGACTAG
CTGGAAACTCAGGGGATCTCAGCATCTCTCTTGGACAGCAGGTCCTATGAAACCCTTGTGGATTTTGATAAACCCTGGAT
GTCATCTGAAATGATTGGACAAATCTCAGTAAAGTTGATCTACACCTA

Alignment

ORF - retro_meug_1050 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.84 %
• Parental protein coverage: 71.71 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PLFHGTLALA-PMLEVALTLIDSWCKDNSYVIAGYYQANERVKDASPNQVSEEVVSRI-VEGFNDITFIM
          PLF.....L....L..ALTLID.WCKDNSY.I.GY.QANE.VKDA.PNQ.S..V.SR...EG.ND..FI.
Retrocopy PLFGDCISLSHSTLVLALTLID*WCKDNSYMIVGYCQANEHVKDACPNQLSKNVASRM<AEGSNDTAFII

Parental  ADNTKFTMECLEPMIHVYEHHENK-RCRDPH-DYCEDWPETQRISASHLNIRSYKTLVDFDN-HLDNIND
          ADN.KF.MEC.EP.IHVYE.HENK..CRDPH..YCED..ETQ.ISAS.L..RSY.TLVDFD...LD.I..
Retrocopy ADNMKFIMECIEPTIHVYEYHENKWWCRDPHYGYCED*LETQGISASLLDSRSYETLVDFDK<TLDVI*N

Parental  PNPEINKTVLHL
          ......K..LHL
Retrocopy DWTNLSKVDLHL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_1050 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1050 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii 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,