RetrogeneDB ID: retro_meug_220

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_6508:122113..122404(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RANGRF
• Ensembl ID: ENSMEUG00000006399
• Aliases: None
• Description: RAN guanine nucleotide release factor [Source:HGNC Symbol;Acc:17679]

Sequence

>retro_meug_220
ATGGAGTCCAAATGAAACCATTTGCTGTTTGAGGAAGTCTGCTCCATTACCCTTCTCCCAGGAACTCTGGATGTGAGTGA
TTTTCAGCCCCGTACTGGACAACCAGGAAGTTTTCTGTCACCCAGGACAGAGCACAGTCTCTTCCTAGAACTCCTGGAGC
TGCAAGTGCATCTGCAAAGAGAAGTAGCAGCTCAGTACCACTTTGAGGCTCTAGGATGGGTGCAAGGGTCAGGGGGAAAG
CAAGCCCCTCTCCCCCCATACTCTGTCCCTTTGGGGCTGCTGGGATGCCAA

Alignment

ORF - retro_meug_220 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.14 %
• Parental protein coverage: 68.75 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MEPKRNHPLFGGAFSITLPPGALDVSDFRP-VPDNQEVFCHRG-TEQSLIVELLELQAHVQGEAAARYHF
          ME.K.NH.LF....SITL.PG.LDVSDF.P.V.DNQEVFCH.G.TE.SL..ELLELQ.H.Q.E.AA.YHF
Retrocopy MESK*NHLLFEEVCSITLLPGTLDVSDFQP>VLDNQEVFCHPG<TEHSLFLELLELQVHLQREVAAQYHF

Parental  EALGGVQGTGSEQVEAVEPLSPHA--LSLRGCR
          EALG.VQG.G..Q.....PL.P....L.L.GC.
Retrocopy EALGWVQGSGGKQA----PLPPYSVPLGLLGCQ

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_220 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_220 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 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012555	1 retrocopy	retro_chof_14,
Dasypus novemcinctus	ENSDNOG00000018164	1 retrocopy	retro_dnov_2261,
Dipodomys ordii	ENSDORG00000007147	2 retrocopies	retro_dord_325, retro_dord_346,
Macropus eugenii	ENSMEUG00000006399	2 retrocopies	retro_meug_1091, retro_meug_220 ,
Mus musculus	ENSMUSG00000032892	2 retrocopies	retro_mmus_175, retro_mmus_2983,
Rattus norvegicus	ENSRNOG00000004980	4 retrocopies	retro_rnor_1148, retro_rnor_2982, retro_rnor_2983, retro_rnor_759,