RetrogeneDB ID: retro_meug_1174

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold31439:3945..4685(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ILF2
• Ensembl ID: ENSMEUG00000003651
• Aliases: None
• Description: interleukin enhancer binding factor 2 [Source:HGNC Symbol;Acc:6037]

Sequence

>retro_meug_1174
GATAGGGGACGTTACAGTGGAGGGTACTTTGGCTGCAGAGGAGGACCAAGAGGAGGGTTCAAGCCATTTGTGCCACACAT
CTCATTTGACTTCTGTGTGTGTGAAATAGCCTTCCCCGGAGTCAAACCTGCACCTGATGAAACCACCTTTGGTGAAGCCT
TACTGAAGAGGAAACAGGACCTTGCTCCCAATTCTGATGAATAGGCATCCACCCTTTCTCTGGTAACAAAAATCAAGAAT
GTGATTGACAACCTGATTGTGGTTCTAGGAACCTTCGAAGTGCTGTTAAACAGGTCCAGCAAGTGAGATCTTACAAGAAA
GGGACCATGACCATGGGGCATGATATGGCTGATCCAATAGTGATCCTAAAGAGCCTGCCAACATTAGAAGCTATTGCATC
CTTGGAGGACAAAATGGAAAGTCTTAGAGCACAGGATTCTGCAAAAGTTTTGACTATGCTGACCCATGAAACTGGCTTTG
AGATTAGCTCTGCTGATGCCATAGTGAGGATTCTTCTTACGATAGTGCCACCCAGTCTTTGAAAGCTGGCCCCAGAACTG
CATTTGGATATCAAAGTTCTGCAGAGTACCTTGGAGGACATTTGGTATGCCAGTTAGTTTGAAGACAATGCTTCTCAGTC
TATGGTAAAAGTTCTCATCTGTCTACTGGAGGACTTGAGGGTTTGGTTCTCTGGCTTTGAACCTCACACAGCTTGGAACC
TTGACCTTTGGAGCTACTAT

Alignment

ORF - retro_meug_1174 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.09 %
• Parental protein coverage: 63.92 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DRGRGRGGRFGSRGGPGGGFRPFVPHIPFDFYVCEMAFPRVKPAPDETTFSEALLKRNQDLAPNSAEQAS
          DRGR..GG.FG.RGGP.GGF.PFVPHI.FDF.VCE.AFP.VKPAPDETTF.EALLKR.QDLAPNS.E.AS
Retrocopy DRGRYSGGYFGCRGGPRGGFKPFVPHISFDFCVCEIAFPGVKPAPDETTFGEALLKRKQDLAPNSDE*AS

Parental  ILSLVTKINNVIDNLIVAPGTFEV-QIEEVRQVGSYKKGTMTTGHNVADLVVILKILPTLEAVAALGNKV
          .LSLVTKI.NVIDNLIV..GTFEV.....V.QV.SYKKGTMT.GH..AD..VILK.LPTLEA.A.L..K.
Retrocopy TLSLVTKIKNVIDNLIVVLGTFEV<AVKQVQQVRSYKKGTMTMGHDMADPIVILKSLPTLEAIASLEDK-

Parental  VESLRAQDPAEVLTMLTNETGFEISSADATVKILITTVPPNLRKLDPELHLDIKVLQSALAAIRHARWFE
          .ESLRAQD.A.VLTMLT.ETGFEISSADA.V.IL.T.VPP.L.KL.PELHLDIKVLQS.L..I..A..FE
Retrocopy MESLRAQDSAKVLTMLTHETGFEISSADAIVRILLTIVPPSL*KLAPELHLDIKVLQSTLEDIWYAS*FE

Parental  ENASQSTVKVLIRLLKDLRIRFPGFEPLTPWILDLLGHY
          .NASQS.VKVLI.LL.DLR..F.GFEP.T.W.LDL...Y
Retrocopy DNASQSMVKVLICLLEDLRVWFSGFEPHTAWNLDLWSYY

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_1174 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1174 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 12 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000017530	1 retrocopy	retro_cfam_1358,
Erinaceus europaeus	ENSEEUG00000013100	1 retrocopy	retro_eeur_500,
Homo sapiens	ENSG00000143621	2 retrocopies	retro_hsap_1405, retro_hsap_2654,
Macropus eugenii	ENSMEUG00000003651	1 retrocopy	retro_meug_1174 ,
Microcebus murinus	ENSMICG00000013730	1 retrocopy	retro_mmur_206,
Myotis lucifugus	ENSMLUG00000001847	3 retrocopies	retro_mluc_1046, retro_mluc_217, retro_mluc_2402,
Macaca mulatta	ENSMMUG00000008149	1 retrocopy	retro_mmul_1516,
Oryctolagus cuniculus	ENSOCUG00000005430	1 retrocopy	retro_ocun_1216,
Pongo abelii	ENSPPYG00000000800	1 retrocopy	retro_pabe_2318,
Pan troglodytes	ENSPTRG00000001358	2 retrocopies	retro_ptro_1789, retro_ptro_963,
Ictidomys tridecemlineatus	ENSSTOG00000000667	1 retrocopy	retro_itri_130,
Tarsius syrichta	ENSTSYG00000012061	3 retrocopies	retro_tsyr_1448, retro_tsyr_1745, retro_tsyr_496,