RetrogeneDB ID: retro_meug_893

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold22177:5378..5849(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: E2F6
• Ensembl ID: ENSMEUG00000007957
• Aliases: None
• Description: E2F transcription factor 6 [Source:HGNC Symbol;Acc:3120]

Sequence

>retro_meug_893
AGAGTAGCAAAACCTCACTTAGGGTGTATCTTTGTTTTATTTAACTTGTAAATTTATGGAACTCATCAAATTTGCCTCTG
GTGGAGATCTTGATTTAAATGAAGATGCAACAACATTGGGAGTACAGAAAGGAAGCGTATATGACATCATCAGTGCATTA
GATGAAATTGACATCATTCAAAAAACTCTAAGAACCATATTCAATGGATTGGATCTGATCTTGATATTTGATCAAAAGTA
CCCCAACAAAAGAAGATAAGGAATGAACTTACTGATTTAACAGTAATGGAAAAGGCTTTGGATGAGTTAATTAAGGATTA
TGCTCAGCAACTGTTTAAACTAATAGAAAATGAAGGATTGGCTTATATGACCTATCAAGATATCCATAGTATTCAAGTTT
TCCATGAACAGATTGTTATTGCAGTCAAGGCTCCAGAAGAAACTAAATTGGAAGTGCCAACTCCTAAAGAT

Alignment

ORF - retro_meug_893 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.69 %
• Parental protein coverage: 79.7 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  RVAKPRYD-VSLVYLTRKFMELIKSAPGGVLDLNEVATTLGVRKRRVYDITNVLDGIDLIQK-RSKNHIQ
          RVAKP....VSL.YLT.KFMELIK.A.GG.LDLNE.ATTLGV.K..VYDI...LD.ID.IQK..SKNHIQ
Retrocopy RVAKPHLG>VSLFYLTCKFMELIKFASGGDLDLNEDATTLGVQKGSVYDIISALDEIDIIQK<NSKNHIQ

Parental  WIGSDLGGIGSKVPHQKKIRDELNDLTAMEKALDELIKDCAQQLFELTDDKENERLAYVTYQDIHSIQAF
          WIGSDL..I.SKVP.QKKIR.EL.DLT.MEKALDELIKD.AQQLF.L....ENE.LAY.TYQDIHSIQ.F
Retrocopy WIGSDLD-I*SKVPQQKKIRNELTDLTVMEKALDELIKDYAQQLFKLI---ENEGLAYMTYQDIHSIQVF

Parental  HEQIVIAVKAPEETKLEVPAPKE
          HEQIVIAVKAPEETKLEVP.PK.
Retrocopy HEQIVIAVKAPEETKLEVPTPKD

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_893 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_893 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 14 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000048286	1 retrocopy	retro_btau_1820,
Choloepus hoffmanni	ENSCHOG00000005114	5 retrocopies	retro_chof_1613, retro_chof_2316, retro_chof_2487, retro_chof_2627, retro_chof_537,
Callithrix jacchus	ENSCJAG00000006910	1 retrocopy	retro_cjac_178,
Dasypus novemcinctus	ENSDNOG00000000258	1 retrocopy	retro_dnov_187,
Dipodomys ordii	ENSDORG00000013213	1 retrocopy	retro_dord_369,
Homo sapiens	ENSG00000169016	4 retrocopies	retro_hsap_2542, retro_hsap_2547, retro_hsap_2572, retro_hsap_4906,
Macropus eugenii	ENSMEUG00000007957	4 retrocopies	retro_meug_1169, retro_meug_860, retro_meug_882, retro_meug_893 ,
Myotis lucifugus	ENSMLUG00000003384	1 retrocopy	retro_mluc_864,
Macaca mulatta	ENSMMUG00000023225	1 retrocopy	retro_mmul_87,
Nomascus leucogenys	ENSNLEG00000014134	1 retrocopy	retro_nleu_2351,
Otolemur garnettii	ENSOGAG00000013601	2 retrocopies	retro_ogar_2337, retro_ogar_3080,
Pongo abelii	ENSPPYG00000012646	1 retrocopy	retro_pabe_1,
Pan troglodytes	ENSPTRG00000011661	2 retrocopies	retro_ptro_1484, retro_ptro_3272,
Ictidomys tridecemlineatus	ENSSTOG00000003316	1 retrocopy	retro_itri_135,