RetrogeneDB ID: retro_meug_614

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold146564:3410..4180(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DND1
• Ensembl ID: ENSMEUG00000016276
• Aliases: None
• Description: dead end homolog 1 (zebrafish) [Source:HGNC Symbol;Acc:23799]

Sequence

>retro_meug_614
ATGAAGTCCAAGAAGGAGTGTAAGTTGTGATGTGATCAGGTGAATCCAGTGAAAGAGGCTGCACTGGAGGCTTGGATGAA
GGTAACGGGATTCCGACTAGTGCAAGTGAACTGGCACAGGCAATACTGAGGTCCACCCCAGGCTGAGTGGCAGCCAACCC
TCCACCAGTGGGTTCAGAGGTGTTCATCAGTCACCTGGCCCAGGATGTGTATGATCACCTGCTGATTCCAGTGTTCCAGC
AAATGGGGCTTCTCCAAGAGTTTCACCTCATGATGACTTTTAGTGCCCTGGCCTAGGCTTCACCTAAGCTCCATACAGCT
ACCCCTTCGGGGTCCAGGCTTCCACTGTCACTCTTCACCACCACCCTCTTGGCCTCCCTGCCCACTAATGGTCTGCCAGA
GCATCGAGAAATGGGAGGTGACCCTGTATGGGCTGCCATCAGCCCTGAGCCACCAGGCCTTGCTTCAGGCTCTGCAGCCC
ACAGGCTCCACAGGAAGCACTGCAGTTCCCCAGTCTTATGTACCCCCACAAACAGATTGCACTGCTCAAGTTTAACTCCT
ACAGGGCTGCAGCCACAGCCAAGTAGGCTCTGGTAGAAGGTGCTCAAAGTTCTGTGGTGAGCAGGTGGCAGTAGAATGGC
TGAAGACCAACCTGAAGTAATGACTCCGACAGCAAACTAAAGGTCCTTTATTTTGGGGCTTGAGGCCTGAGAGCAGCCAT
AGAAACCTACCTGAAAAATTGGGACCCCGATACCCCCTGGCTGTGCCCAG

Alignment

ORF - retro_meug_614 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.04 %
• Parental protein coverage: 76.72 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  MQSKRECELWCERVNPVNKAALEAWVRETGIRLVQVNGQRKYGGPP-PGWVGS-PPPAGSEVFIGRLPQD
          M.SK.EC.L.C..VNPV..AALEAW...TG.RLVQVN..R.Y.GPP.PG.V...PPP.GSEVFI..L.QD
Retrocopy MKSKKECKL*CDQVNPVKEAALEAWMKVTGFRLVQVNWHRQY*GPP<PG*VAANPPPVGSEVFISHLAQD

Parental  VYEHQLIPLFQRVGRLYEFRLMMTFSGL-NRGFAYARYSSRRGAQAAIATLHNHPLR-PACPLLVCRSTE
          VY.H.LIP.FQ..G.L.EF.LMMTFS.L...GF..A.YS...G.QA...TLH.HPL..P.CPL.VC.S.E
Retrocopy VYDHLLIPVFQQMGLLQEFHLMMTFSAL<GLGFT*APYSYPFGVQASTVTLHHHPLG<PPCPLMVCQSIE

Parental  KCELTLDGLPPALSHQALLQALQ-PLGPGLQEALLLPSLA--PLQIALLKFSSHRAAAMAKKALVEGR-S
          K.E.TL.GLP.ALSHQALLQALQ.P..P..QEAL..PSL.....QIALLKF.S.RAAA.AK.ALVEG..S
Retrocopy KWEVTLYGLPSALSHQALLQALQ>PQAP--QEALQFPSLMYPHKQIALLKFNSYRAAATAK*ALVEGA<S

Parental  KLCGEQVTVEWLKPDLKQRLRQQTEGPLFRGLATENSQRTLPEKL-GTLITPSCAQ
          K.CGEQV.VEWLK..LK..LRQQT.GPLF.GL..E.S.R.LPEKL.GT.I.P.CAQ
Retrocopy KFCGEQVAVEWLKTNLK**LRQQTKGPLFWGLRPESSHRNLPEKL<GTPIPPGCAQ

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_614 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_614 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000016345	1 retrocopy	retro_cjac_557,
Homo sapiens	ENSG00000256453	1 retrocopy	retro_hsap_1760,
Macropus eugenii	ENSMEUG00000016276	2 retrocopies	retro_meug_1326, retro_meug_614 ,
Mus musculus	ENSMUSG00000044595	1 retrocopy	retro_mmus_2548,
Pongo abelii	ENSPPYG00000015863	1 retrocopy	retro_pabe_1502,
Rattus norvegicus	ENSRNOG00000016894	1 retrocopy	retro_rnor_2782,