RetrogeneDB ID: retro_meug_403

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold110051:3235..3831(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KRT19
• Ensembl ID: ENSMEUG00000016158
• Aliases: None
• Description: keratin 19 [Source:HGNC Symbol;Acc:6436]

Sequence

>retro_meug_403
GAGGATGCCTTTTGTCTCAGTGTGGAGGCCAACATGAGAGTACTTAATGAATTGACCCTTGCCAGGGCTGACCTGGATAT
GCAGATTGAAGGCCTGAAGGAGGAGCTAGCCTTCCTCAAGAAGAACAATGAAGAGGAAATAAGTGCTCTGAGTGTGCAGG
TGAGTGGCTAGATTAGCATGAGAGTGGACTTGGCCCCAGGCATCGTCTTGGCCAAGATCCTGAGTGACATGAGAAGCCAG
TATGAGGCCGCAGTCGAGAAGAACAGTAGTGATGCCAAAACTAGGTTCACCAGCCAGACAGAGTTGCAGAACCAAGAAAT
TGCCATCCATACAAAACAGCTCCACACCAGCAAAACTGAAGTTATCAACCTCTGATGGACCCTTCAGGGGCTAGAGATTG
AGTTGCAATCTCAGCTCAGCATGAAAGCTGCTGTGGAAGGCACACTGGCAGAACAGAGGCCTGTTATGGAGCCCAGCTGT
CACAGATACAAGCTCTCATCAGCAACATCGAGACCCAGTTGAGTGACATCTGAGTAGACACAGAACTCCAGAACCAGGAA
TACCTGCTCCTCACATATATCAAGAGTCAGTTCGAG

Alignment

ORF - retro_meug_403 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.57 %
• Parental protein coverage: 51.13 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EQALRLSVEADINGLRRVLDELTLARADLEMQIEGLKEELAYLKKNHEEEISALSGQVGGQVSVEVDSAP
          E.A..LSVEA......RVL.ELTLARADL.MQIEGLKEELA.LKKN.EEEISALS.QV.G..S..VD.AP
Retrocopy EDAFCLSVEANM----RVLNELTLARADLDMQIEGLKEELAFLKKNNEEEISALSVQVSG*ISMRVDLAP

Parental  GIDLAKILTDMRSQYEAMVEKNRNDAEAWFTSKTEELNREVAGDKEQLQISKTEITDLRRTFQGLEIELQ
          GI.LAKIL.DMRSQYEA.VEKN..DA...FTS.TE..N.E.A....QL..SKTE...L..T.QGLEIELQ
Retrocopy GIVLAKILSDMRSQYEAAVEKNSSDAKTRFTSQTELQNQEIAIHTKQLHTSKTEVINL*WTLQGLEIELQ

Parental  SQLSMKAALEGTLAE-TEARYGAQLSQIQVLISNIEAQLSDIRADMERQNQEYLLLMDIKSRLE
          SQLSMKAA.EGTLAE.TEA.YGAQLSQIQ.LISNIE.QLSDI..D.E.QNQEYLLL..IKS..E
Retrocopy SQLSMKAAVEGTLAE<TEACYGAQLSQIQALISNIETQLSDI*VDTELQNQEYLLLTYIKSQFE

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_403 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_403 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 15 parental genes, and 46 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000029756	9 retrocopies	retro_cjac_1151, retro_cjac_1812, retro_cjac_2347, retro_cjac_2646, retro_cjac_3108, retro_cjac_3198, retro_cjac_3237, retro_cjac_3358, retro_cjac_633,
Equus caballus	ENSECAG00000014086	2 retrocopies	retro_ecab_76, retro_ecab_931,
Echinops telfairi	ENSETEG00000007881	6 retrocopies	retro_etel_1217, retro_etel_1319, retro_etel_191, retro_etel_480, retro_etel_685, retro_etel_95,
Homo sapiens	ENSG00000171345	3 retrocopies	retro_hsap_3486, retro_hsap_585, retro_hsap_959,
Gorilla gorilla	ENSGGOG00000016901	3 retrocopies	retro_ggor_2352, retro_ggor_518, retro_ggor_773,
Macropus eugenii	ENSMEUG00000011537	1 retrocopy	retro_meug_1320,
Macropus eugenii	ENSMEUG00000016158	3 retrocopies	retro_meug_1860, retro_meug_403 , retro_meug_826,
Macaca mulatta	ENSMMUG00000018653	4 retrocopies	retro_mmul_1770, retro_mmul_717, retro_mmul_774, retro_mmul_790,
Nomascus leucogenys	ENSNLEG00000010787	3 retrocopies	retro_nleu_1609, retro_nleu_2204, retro_nleu_800,
Oryctolagus cuniculus	ENSOCUG00000016132	1 retrocopy	retro_ocun_1884,
Otolemur garnettii	ENSOGAG00000024306	1 retrocopy	retro_ogar_1301,
Ochotona princeps	ENSOPRG00000007908	2 retrocopies	retro_opri_337, retro_opri_673,
Pongo abelii	ENSPPYG00000008416	3 retrocopies	retro_pabe_2880, retro_pabe_603, retro_pabe_820,
Pan troglodytes	ENSPTRG00000009168	3 retrocopies	retro_ptro_2074, retro_ptro_2359, retro_ptro_430,
Ictidomys tridecemlineatus	ENSSTOG00000014403	2 retrocopies	retro_itri_1514, retro_itri_697,