RetrogeneDB ID: retro_meug_2172

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold98081:2723..3162(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MYL6
• Ensembl ID: ENSMEUG00000001272
• Aliases: None
• Description: myosin, light chain 6, alkali, smooth muscle and non-muscle [Source:HGNC Symbol;Acc:7587]

Sequence

>retro_meug_2172
GATTTTACGAAATATCAGATTATAGAATTCAAGGAAGCCTTCCAGCTGTTTAACAGAACAGGGGATAGGAAGGTCTTGTA
TAGCCAGCATGGGGATGTGATATGTATCTTGGACCAGAACCTTAGCAATGGTAAGGTACTCAAGGTCTTAAGGAATCCCA
AGAGTTATGAGATGAATGTGAAGGTGCTGGACTTTTAAACACTTTCTTCCTGTGCTGCAGACAGTGACAAAGACTTGGGA
CCAGGGCCCACATGAATACTAGGTAGTGGGAATTTGAGTGTTGGATAAGGAGAATGGTAGTGTCATAGCAACTGAAATAT
GACATGTGCTCATTTCCCTGAGTCAGAAGATCACAGAGGAAGTAGTGGAAGTGTTGGTGGCAGAATATGAGGATAGCTAT
GGTTACATAAACTATGAAAACCTAATCTAGAAACTGTTG

Alignment

ORF - retro_meug_2172 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.19 %
• Parental protein coverage: 97.35 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DFTEDQTAEFKEAFQLFDRTGDGKILYSQCGDVMRALGQNPTNAEVLKVLGNPKSDEMNVKVLD-FEHFL
          DFT..Q..EFKEAFQLF.RTGD.K.LYSQ.GDV...L.QN..N..VLKVL.NPKS.EMNVKVLD.F.HFL
Retrocopy DFTKYQIIEFKEAFQLFNRTGDRKVLYSQHGDVICILDQNLSNGKVLKVLRNPKSYEMNVKVLD>FKHFL

Parental  PMLQTVAKNKDQGTYEDYVEGLRVFDKEGNGTVMGAEIRHVLITLGEKMTEEEVEVLVAGHEDSNGCINY
          P.LQTV.K..DQG..E..V.G..V.DKE.NG.V...EI.HVLI.L..K.TEE.VEVLVA..EDS.G.INY
Retrocopy PVLQTVTKTWDQGPHEY*VVGI*VLDKE-NGSVIATEI*HVLISLSQKITEEVVEVLVAEYEDSYGYINY

Parental  EAFVRHIL
          E......L
Retrocopy ENLI*KLL

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_2172 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_2172 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 14 parental genes, and 46 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000092841	2 retrocopies	retro_hsap_1786, retro_hsap_2533,
Macropus eugenii	ENSMEUG00000001272	1 retrocopy	retro_meug_2172 ,
Macropus eugenii	ENSMEUG00000006905	5 retrocopies	retro_meug_1796, retro_meug_21, retro_meug_537, retro_meug_87, retro_meug_914,
Macaca mulatta	ENSMMUG00000031838	6 retrocopies	retro_mmul_1633, retro_mmul_1663, retro_mmul_211, retro_mmul_2221, retro_mmul_2410, retro_mmul_96,
Mus musculus	ENSMUSG00000090841	7 retrocopies	retro_mmus_1281, retro_mmus_1504, retro_mmus_2328, retro_mmus_3231, retro_mmus_3333, retro_mmus_3358, retro_mmus_434,
Nomascus leucogenys	ENSNLEG00000000205	2 retrocopies	retro_nleu_2736, retro_nleu_779,
Oryctolagus cuniculus	ENSOCUG00000017371	1 retrocopy	retro_ocun_1300,
Otolemur garnettii	ENSOGAG00000034596	1 retrocopy	retro_ogar_2549,
Pongo abelii	ENSPPYG00000004647	3 retrocopies	retro_pabe_1467, retro_pabe_1864, retro_pabe_538,
Pan troglodytes	ENSPTRG00000005080	2 retrocopies	retro_ptro_1196, retro_ptro_1476,
Sarcophilus harrisii	ENSSHAG00000004472	6 retrocopies	retro_shar_137, retro_shar_318, retro_shar_452, retro_shar_510, retro_shar_719, retro_shar_765,
Sus scrofa	ENSSSCG00000025467	1 retrocopy	retro_sscr_829,
Ictidomys tridecemlineatus	ENSSTOG00000023318	1 retrocopy	retro_itri_1478,
Tupaia belangeri	ENSTBEG00000000485	8 retrocopies	retro_tbel_130, retro_tbel_1715, retro_tbel_2980, retro_tbel_332, retro_tbel_3515, retro_tbel_3545, retro_tbel_3707, retro_tbel_4075,