RetrogeneDB ID: retro_meug_1841

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold64501:4808..5765(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARFGAP2
• Ensembl ID: ENSMEUG00000004984
• Aliases: None
• Description: ADP-ribosylation factor GTPase activating protein 2 [Source:HGNC Symbol;Acc:13504]

Sequence

>retro_meug_1841
TATTGGGAGAAGATCTTGCAGCTAGAGAGTGCTGCCCTTGCCAAGTATGGCACTGATCTTTGGATAAAGAACATGAACAC
TGCTCCTGGCCATTCACCAGAAAAGAAGGACTCTGATTTCTTCACAGAACATACTCAGCCTTTGGCCTGGGATGTGCCAG
CCTCCTAGCCTCAAGTGTCTGAACAACCACCATCCCAGCCTTTGGAGAGCAGTGTTCCCACACAATATAAGGAGAGCCTG
AGAGCCAATCTGCTCAACACTTCTCCCAAAACCTCCCTGGAATTAAAATCCTCAATTACTGGCAAGAAGAAGCCAGCAAC
AGCTAAGAAAGGGCTGGGTGCCAAGAATGGACTGGGTGCCCAGAAGATGAGCAGCCAGAGCTTCAGTAAGATTGAGTGAC
AGGCCCAGGCAGTTGAGAAGGTCTGGGACCAGCAGGCGGCCAAGGCCAAAAAGCAGGCTGAGGAGTCTGTGGTCACTTCC
ACCTGCCTGGCCTACCAGGAGCTGCAGATTGACTGCAAGAAAGAAGAAAAGAAGTTATAGAGCCTGGAGGGGCGGAAGTG
GGAGCACACGGAGTGCCTGGGCATGGGTTTGGTTTCCTGAAGTTCCATCTCTCACTCAGTGCTTTCAGAGATGCAGGTGA
TGGAGCAGGAAACACCAGTGAATGCCAAGTCCTCCCCATCCCAGTTGGACCTGTTCGATGACACTAGGAGCTTTGCTTCC
AGACCCCCTAAATATGAGGTTAGCCCCTTTTCTCTGGGAGATGACTTTGCTTCCCGCTGAGACACTGATGCTTCCTGGAG
TGTGGACAGGATGGAGAAGGAGCTCTGAGATGACAATCTCTAGTATTTGGCCTATTGCAGAGAGACTAAGAAACCAAAGA
GAGGTTGGAAGCCAACCATCGACCATCAACCATCGACTGCAAAATCTAAGGAAGCTGGTCAGAAGTCTGTGGAAGCC

Alignment

ORF - retro_meug_1841 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.39 %
• Parental protein coverage: 84.8 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  YREKIRQLGSAALAKHGTDLWIESVGAAAGPSPEKRDPDFFSELGGPSAWGVPASEP--GPQPPSQPVES
          Y.EKI.QL.SAALAK.GTDLWI.....A.G.SPEK.D.DFF.E...P.AW.VPAS.P....QPPSQP.ES
Retrocopy YWEKILQLESAALAKYGTDLWIKNMNTAPGHSPEKKDSDFFTEHTQPLAWDVPAS*PQVSEQPPSQPLES

Parental  SVPAEPKQGPTADLLSTSPKTSLELKSSIIGKKKPATAKKGLGAKKGLGAQKVSSQSFSEIERQAQAAEK
          SVP...K....A.LL.TSPKTSLELKSSI.GKKKPATA...............SSQSFS.IE.QAQA.EK
Retrocopy SVPTQYKESLRANLLNTSPKTSLELKSSITGKKKPATAXXXXXXXXXXXXXXMSSQSFSKIE*QAQAVEK

Parental  FREQQVAEAKKQAEESVVTSMRLAYQELQIDRKKEEKKLESLEGPKREQAERLGMGLVSRSSVSHSVLSE
          ...QQ.A.AKKQAEESVVTS..LAYQELQID.KKEEKKL.SLEG.K.E..E.LGMGLVS.SS.SHSVLSE
Retrocopy VWDQQAAKAKKQAEESVVTSTCLAYQELQIDCKKEEKKL*SLEGRKWEHTECLGMGLVS*SSISHSVLSE

Parental  MQVIEQETPVNAKSSRSQLDLFDDTGSFASGPPKYKDNPFSLGDGFASRWDTDTSWSVDRMEEKE-PEVT
          MQV.EQETPVNAKSS.SQLDLFDDT.SFAS.PPKY...PFSLGD.FASR.DTD.SWSVDRME.KE..E.T
Retrocopy MQVMEQETPVNAKSSPSQLDLFDDTRSFASRPPKYEVSPFSLGDDFASR*DTDASWSVDRME-KE>SEMT

Parental  ISSIRPIAERPTNRREVESWPLAV-ESNEARQKFAGAKAISS
          ISSI.PIAER..N.REV.S.P........A..K.AG.K....
Retrocopy ISSIWPIAERLRNQREVGSQPSTI<QPSTAKSKEAGQKSVEA

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_1841 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1841 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000019965	1 retrocopy	retro_cjac_415,
Macropus eugenii	ENSMEUG00000004984	1 retrocopy	retro_meug_1841 ,
Microcebus murinus	ENSMICG00000007019	1 retrocopy	retro_mmur_51,
Mus musculus	ENSMUSG00000027255	1 retrocopy	retro_mmus_2776,
Oryctolagus cuniculus	ENSOCUG00000002073	2 retrocopies	retro_ocun_1769, retro_ocun_599,