RetrogeneDB ID: retro_meug_1543

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold444887:2..954(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DGCR14
• Ensembl ID: ENSMEUG00000007959
• Aliases: None
• Description: DiGeorge syndrome critical region gene 14 [Source:HGNC Symbol;Acc:16817]

Sequence

>retro_meug_1543
AGTGAGGACAATGCCTCCTTTCAGGAGATCATGAAAGTGGCGAAGGAGAAGGAGCATGTCCACCATGCCTGGCTCTATGA
GGTGGAGGATGAGTTTGAAAAGAGGCAACAGGAGAACCTGGCCTTACTGTCCATGGAGCAGCAGGCCCTGCAGAGTCAGG
CCCAGGCGGAGACCTGGAAGTACAAGGCTAAGAATTCCCTGATGTACTACCCCGAGGGTGTCCCTGATGTGAAGGTCTTG
TTTAAGAAGCCCAGGCAGGTGCTGCACAGAAATACGCATTTTCTTGGGGACCCCTTCAACCAGGCCCTGAGCAAGTCCCA
GGTGCTGCAGGAGCCCCCCTCAATTTCCAGTACAAACAGGGTAAAGTGGGACCTGACTGGAAGGATCTGATCCTTCAGGA
GTTTCCCAAGGTCAATGGATATGGATTCATAGGTCCCCTTTCTCTGGCCTCTGGTGTGAATGAATCTACCATGATGACAT
GGGGTGAGGATGAGAGCACCTCTCTGCAAATTGATGGGTCAGAAACTCCATATGTGGACAGAACTCCAGGGACAGCCTTC
AAGATCCTGAATCATGAACACAGGGAGAGGTTAGGTCTCAAGATGGCCACCGAGGCAGCTGCTAAGAACTAAACCAAAAA
ACAGGAAGCTCTAAGAAGAGTTCCTGAGAACCTGGCCAACCTCACTCCGAAAGGCCAGAGCCCTGCTATGTCTCTGGCCC
AGAAGCACCTCATGAACAAGATTGCCAGCAAATACACTGACAAGGCCCTGTGGGCCAGCTACACACTGTCCCCAGTTCAC
CCTGTCTACAGGACACCTGCAGGTAGCCCTCAGATTCTCATGGGCACTCCTGCCCCTGACACTACCGCGAGGACTCCTCT
GATCCAAGGCCCTGCTTCCATCACTGACAACCTCCTGCAGCTCCCTAAGAGCAAAAAGTATCAAACTTCTTC

Alignment

ORF - retro_meug_1543 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.88 %
• Parental protein coverage: 74.71 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SEDNASFQEIMEVAKEKERARHAWLYEAEDEFEKRQQENLALPSTEQQALQSSQAGVETWKYKAKNSLMY
          SEDNASFQEIM.VAKEKE...HAWLYE.EDEFEKRQQENLAL.S.EQQALQS.QA..ETWKYKAKNSLMY
Retrocopy SEDNASFQEIMKVAKEKEHVHHAWLYEVEDEFEKRQQENLALLSMEQQALQS-QAQAETWKYKAKNSLMY

Parental  YPEGVPDGEDVFKKPRQVLHRNTRFLRDPFSQALSKSQLQQ-AAALNAQYKQGKVGPDGKELIPQESPKV
          YPEGVPD....FKKPRQVLHRNT.FL.DPF.QALSKSQ..Q..A.LN.QYKQGKVGPD.K.LI.QE.PKV
Retrocopy YPEGVPDVKVLFKKPRQVLHRNTHFLGDPFNQALSKSQVLQ<GAPLNFQYKQGKVGPDWKDLILQEFPKV

Parental  NGYGFVATPSPAPGVNESPMMTWGEVESTPLRIDGSETPYVDRTPGPAFKILDPGRRERLGLKMATEAAA
          NGYGF....S.A.GVNES.MMTWGE.EST.L.IDGSETPYVDRTPG.AFKIL....RERLGLKMATEAAA
Retrocopy NGYGFIGPLSLASGVNESTMMTWGEDESTSLQIDGSETPYVDRTPGTAFKILNHEHRERLGLKMATEAAA

Parental  KNRAKKQEALRRVTENLASLTPKGLSPAMSPALQRLVNRTASKYTDKALRASYTPSPVHPGYKTPAGGPQ
          KN..KKQEALRRV.ENLA.LTPKG.SPAMS.A...L.N..ASKYTDKAL.ASYT.SPVHP.Y.TPAG.PQ
Retrocopy KN*TKKQEALRRVPENLANLTPKGQSPAMSLAQKHLMNKIASKYTDKALWASYTLSPVHPVYRTPAGSPQ

Parental  TPTGTPAPGTTTRTPLTQDPASITDNLLQLPK-RRKASDFF
          ...GTPAP.TT.RTPL.Q.PASITDNLLQLPK...K.S.FF
Retrocopy ILMGTPAPDTTARTPLIQGPASITDNLLQLPK<EQKVSNFF

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_1543 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1543 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000007959	2 retrocopies	retro_meug_1543 , retro_meug_907,
Mus musculus	ENSMUSG00000003527	1 retrocopy	retro_mmus_2310,