RetrogeneDB ID: retro_meug_129

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: GeneScaffold_369:12925..13311(+)
• Located in intron of: ENSMEUG00000015215

Retrocopy information

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

Parental gene information

• Parental gene symbol: TK1
• Ensembl ID: ENSMEUG00000002886
• Aliases: None
• Description: thymidine kinase 1, soluble [Source:HGNC Symbol;Acc:11830]

Sequence

>retro_meug_129
TTTCTGGATATTGTAGCATTCAGTGAGACCATAGCAAATGCTGGGAAGACTGTGAATGGAGCTGCACTGGAAGGGACCTT
TCAGAGGAAGGCATTTGGGAATATCCTGAACTTGGTGCCACTGGGCAGAAAATGTAGTGAAATTGACACCAGTGTGCATG
GAGTGCTTCCGGGAAGCTGCTTATACCAAGTTGGGGCTGAGAAAGAGGTTGATGTGTGTGGTGGTGCAGACAAATAATAT
CACTCTGTGTGTCCACTTAACTATTTCAAGAAGTTCTCAGTACAACGTAGAGGGCTGGAAAACACAGACAACTGCCCCAA
GTGGGAAGTTTGGGGGACACCTGAAGCTTTGTTGCTCAACAGATTCTACAGTGCAGTTGAAACAAC

Alignment

ORF - retro_meug_129 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75. %
• Parental protein coverage: 56.65 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  FPDIVEFSETMANAGKTVIVAALDGTFQRKAFGNILNLVPL-AESVVKLTAVCMECFREAAYTKRLG-AE
          F.DIV.FSET.ANAGKTV..AAL.GTFQRKAFGNILNLVPL.AE.VVKLT.VCMECFREAAYTK.LG.AE
Retrocopy FLDIVAFSETIANAGKTVNGAALEGTFQRKAFGNILNLVPL>AENVVKLTPVCMECFREAAYTK-LG<AE

Parental  KEVEVIGGADK-YHSVCRLCYFKKFSGQSNGLENKENC-PLSGKSGDTLAVKLFATQQILQCSSNN
          KEV.V.GGADK.YHSVC.L.YFKKFS.Q..GLEN..NC.P..G..GDT.....F..QQILQCS.NN
Retrocopy KEVDVCGGADK*YHSVCPLNYFKKFSVQRRGLENTDNC<PQVGSLGDT*S---FVAQQILQCS*NN

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_129 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_129 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000002133	1 retrocopy	retro_etel_332,
Macropus eugenii	ENSMEUG00000002886	1 retrocopy	retro_meug_129 ,
Monodelphis domestica	ENSMODG00000001854	2 retrocopies	retro_mdom_227, retro_mdom_691,
Mus musculus	ENSMUSG00000025574	1 retrocopy	retro_mmus_3238,
Rattus norvegicus	ENSRNOG00000047314	2 retrocopies	retro_rnor_1914, retro_rnor_2057,