RetrogeneDB ID: retro_meug_172

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_5095:27280..27559(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RHEB
• Ensembl ID: ENSMEUG00000011774
• Aliases: None
• Description: Ras homolog enriched in brain [Source:HGNC Symbol;Acc:10011]

Sequence

>retro_meug_172
GTGATTGGCCAATTTGTGGATCTATGTGATCCAAGCATAGAAAATACATTTACAAAATTGGTCATGGTAAATCGACAAGA
ATATAATTTTCAGCTAGTAGGCACAGCTGGGCAGGATGAGGATTCCATCTATCTTCAGATGTATTCCATAGGCATTAATG
ATTTACTCAGTTACATCAATCAGAAGTTTTGAAATGATTAAAGTTATCCATGACAAGTTTTGGATATGGTGGAGGAAGTC
CAAGTATACGTTATATTGGTTAGGAGTAAAAAAAGACTA

Alignment

ORF - retro_meug_172 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.57 %
• Parental protein coverage: 76.98 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VEGQFVDSYDPTIENTFTKLITVNGQDYHLQLVDTAGQDEYSIFPQTYSIDINGYILVY-SVTSIKSFEV
          V.GQFVD..DP.IENTFTKL..VN.Q.Y..QLV.TAGQDE.SI..Q.YSI.IN...L.Y.S..S.....V
Retrocopy VIGQFVDLCDPSIENTFTKLVMVNRQEYNFQLVGTAGQDEDSIYLQMYSIGIND-LLSY>SIRSFEMIKV

Parental  IKVIHGK-LLDMVGKVQIPIMLVGNKKDL
          I...H.K..LDMV..VQ....LV..KK.L
Retrocopy I---HDK<VLDMVEEVQVYVILVRSKKRL

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_172 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_172 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 13 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000031861	1 retrocopy	retro_btau_373,
Callithrix jacchus	ENSCJAG00000020414	1 retrocopy	retro_cjac_1694,
Cavia porcellus	ENSCPOG00000007541	2 retrocopies	retro_cpor_287, retro_cpor_787,
Dasypus novemcinctus	ENSDNOG00000016493	1 retrocopy	retro_dnov_2542,
Homo sapiens	ENSG00000106615	2 retrocopies	retro_hsap_568, retro_hsap_570,
Gorilla gorilla	ENSGGOG00000014675	1 retrocopy	retro_ggor_149,
Loxodonta africana	ENSLAFG00000000691	1 retrocopy	retro_lafr_471,
Macropus eugenii	ENSMEUG00000011774	1 retrocopy	retro_meug_172 ,
Myotis lucifugus	ENSMLUG00000004309	2 retrocopies	retro_mluc_2140, retro_mluc_857,
Mus musculus	ENSMUSG00000028945	1 retrocopy	retro_mmus_1779,
Oryctolagus cuniculus	ENSOCUG00000013173	1 retrocopy	retro_ocun_1309,
Ictidomys tridecemlineatus	ENSSTOG00000004544	2 retrocopies	retro_itri_1251, retro_itri_1357,
Tarsius syrichta	ENSTSYG00000001286	2 retrocopies	retro_tsyr_1174, retro_tsyr_1848,