RetrogeneDB ID: retro_meug_2105

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold90802:7608..8120(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000004885
• Aliases: None
• Description: None

Sequence

>retro_meug_2105
GTCAAAGAGTCTGAAAAAGTAGGAGATCAAGCATAAAAAATGGTGATGAGAGGTGTCAGCGATCTAGATTTCTTTATTAG
GGATAAGCAATAGAAAAGTCAACTTAAGCAACAAAGCAGCCAATCTGCCATGGCACAGTTGAGGATTGGGACTTGATGTA
GAGACTTATGGAGCAACTGATCTTCAAATACATAAAGATAGAATCTGAAGGTTCATATTTTCTTTTGACTGAACCTCCAC
TAAATACATCAGGAAGCAGAGAATAAACTGCTTAAACTACATTTGAATCCTTTAATGTTCCAAGCCTATACATAACTATA
CCTGTTGTCTTTGCTTTAGTTGCATCTTGGATGTCAAGACCAGTAGGAAAGTAGATAATGATTGGTATGTTTGTAGACAG
TGGAGACAGTGTCACTCATTTCATTCCTGTGGCTGAAGGGTATGTGATTGGCAGCTGTATCAAACACATTCCAATTGCTG
GGAGAGATATAACATATTTCATTCAACAATTA

Alignment

ORF - retro_meug_2105 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.86 %
• Parental protein coverage: 52.78 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IRESAKVVDQAQRRVLRGVDDLDFFIGDE-AIDKPTYATKWPIRHGIIEDWDLMERFMEQVIFKYLRAEP
          ..ES.KV.DQA...V.RGV.DLDFFI.D..AI.K.T.ATK.PI.HG..EDWDLM.R.MEQ.IFKY...E.
Retrocopy VKESEKVGDQA*KMVMRGVSDLDFFIRDK<AIEKST*ATKQPICHGTVEDWDLM*RLMEQLIFKYIKIES

Parental  EDHYFLMTEPPLNTPENREYLAEIMFESFNVPGLYIAVQAVLALAASWTSRQVGERTLTGIVIDSGDGVT
          E..YFL.TEPPLNT...RE..A...FESFNVP.LYI....V.AL.ASW.SR.VG.....G...DSGD.VT
Retrocopy EGSYFLLTEPPLNTSGSRE*TA*TTFESFNVPSLYITIPVVFALVASWMSRPVGK*IMIGMFVDSGDSVT

Parental  HVIPVAECYVIGSCIKHIPIAGRDITYFIQQL
          H.IPVAE.YVIGSCIKHIPIAGRDITYFIQQL
Retrocopy HFIPVAEGYVIGSCIKHIPIAGRDITYFIQQL

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_2105 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2105 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.

---

Parental genes homology:

Parental genes homology involve 11 parental genes, and 36 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007730	5 retrocopies	retro_chof_1134, retro_chof_1204, retro_chof_1899, retro_chof_208, retro_chof_2171,
Dasypus novemcinctus	ENSDNOG00000019288	2 retrocopies	retro_dnov_1143, retro_dnov_2539,
Homo sapiens	ENSG00000133627	7 retrocopies	retro_hsap_1676, retro_hsap_2126, retro_hsap_2540, retro_hsap_2966, retro_hsap_4334, retro_hsap_4921, retro_hsap_561,
Macropus eugenii	ENSMEUG00000004885	5 retrocopies	retro_meug_1340, retro_meug_1477, retro_meug_2105 , retro_meug_330, retro_meug_899,
Nomascus leucogenys	ENSNLEG00000015688	1 retrocopy	retro_nleu_733,
Oryctolagus cuniculus	ENSOCUG00000000459	1 retrocopy	retro_ocun_320,
Otolemur garnettii	ENSOGAG00000003249	2 retrocopies	retro_ogar_1307, retro_ogar_3388,
Pongo abelii	ENSPPYG00000018206	1 retrocopy	retro_pabe_2460,
Pan troglodytes	ENSPTRG00000019897	8 retrocopies	retro_ptro_1137, retro_ptro_1479, retro_ptro_2007, retro_ptro_2952, retro_ptro_2961, retro_ptro_3052, retro_ptro_3281, retro_ptro_420,
Tupaia belangeri	ENSTBEG00000011647	2 retrocopies	retro_tbel_2820, retro_tbel_932,
Tursiops truncatus	ENSTTRG00000016334	2 retrocopies	retro_ttru_471, retro_ttru_93,