RetrogeneDB ID: retro_meug_1860

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold66649:4643..5620(-)
• 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_1860
CTGGTAGGCAATGAGAAGATCACCGTGAGAAACCTCAACGACAGCCTGGCCTCCTACCTGGAGGAGGTGCATGCGTTGGA
GGAGACCAAGTACCGACCTGGAGGTTAAGATCTGGGATTGGTCTCAGAAGCAGGGCCGTGGACCAGCCTGAAACTACAGT
GCCTATGTGAAGACTGTTAAGGACCTCTAAGATAAGATTCTTGGTGCCTCCATCGAGAACTCAAATATTGTTCTGCAAAT
TGACAATGCCCGGCTGGCTGTAGATGACTTCTGAACCAAGTTTGAAACTGAGTAGGCTCTGCATCTCAGTGTGGAGACTG
ACATCAATGGCCTATGAAGAGTACTAGATGTGTTGACCCTGACCAGGGCTGACCTGGAGATACAGATTGAAGTCCTGAAG
GAGGAGCTGGCCTACCTCCAAAAAAACCATGAAGAGGAAATAAATGCTCTGAGTGGGCAGGTAGGTGGCCAGGTTAGTGT
GGAGGTGGACTCAGTCCCAGGCATTGATTTGGTCAAGATCCTGACAGACATGAGAAGCCAGTATGAGGCCATGGTTGAGA
AGAGCAGGAGTGATGCTGAAGCTTGGTCCACCAGCAAGACAGAGGGAACTGAACAAAGAAGTTGCCTTTCATATGGAACA
GTTCCAGACCAGCAAGGCTAAAGTCACTGACGTCTGGTGGGCCCTTCAGAGGCTAGAGATCGAGCTGTAGTCTCACCTCA
GCATGAAAGCTGCTCTCCAAGACACAATGGTGAAAATAGAGACCTGTTATGGGGCCCAACTGTCACAAATACAGGCTCTC
CTCAGCAACACTGAGGCCTAGTTGAGTGACATCCGAGAAGACACAGAGCACCAAAATCAGGAATACCTGCTCATCATGGA
TATCAAGAGTCTGCTGGATCAGGAAGTAGCTATCTACCACAGCCTACTGGAGGGCCATGATGCCCAGGACAACAGTATAC
CCACAATTCCCAAAGCT

Alignment

ORF - retro_meug_1860 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.62 %
• Parental protein coverage: 81.86 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LAGNEKITMQNLNDRLASYLDKVRALEEA-NAGLEVKIRDWHQKQGPGPARDYSAYMRTIQDLRDQILGA
          L.GNEKIT..NLND.LASYL..V.ALEE.....LEVKI.DW.QKQG.GPA..YSAY..T..DL.D.ILGA
Retrocopy LVGNEKITVRNLNDSLASYLEEVHALEET>STDLEVKIWDWSQKQGRGPA*NYSAYVKTVKDL*DKILGA

Parental  TIENSKIVLQIDNARLAADDFRTKFETEQALRLSVEADINGLRRVLDELTLARADLEMQIEGLKEELAYL
          .IENS.IVLQIDNARLA.DDF.TKFETE.AL.LSVE.DINGL.RVLD.LTL.RADLE.QIE.LKEELAYL
Retrocopy SIENSNIVLQIDNARLAVDDF*TKFETE*ALHLSVETDINGL*RVLDVLTLTRADLEIQIEVLKEELAYL

Parental  KKNHEEEISALSGQVGGQVSVEVDSAPGIDLAKILTDMRSQYEAMVEKNRNDAEAWFTSKTE-ELNREVA
          .KNHEEEI.ALSGQVGGQVSVEVDS.PGIDL.KILTDMRSQYEAMVEK.R.DAEAW.TSKTE.ELN.EVA
Retrocopy QKNHEEEINALSGQVGGQVSVEVDSVPGIDLVKILTDMRSQYEAMVEKSRSDAEAWSTSKTE>ELNKEVA

Parental  GDKEQLQISKTEITDLRRTFQGLEIELQSQLSMKAALEGTLAETEARYGAQLSQIQVLISNIEAQLSDIR
          ...EQ.Q.SK...TD.....Q.LEIEL.S.LSMKAAL..T....E..YGAQLSQIQ.L.SN.EA.LSDIR
Retrocopy FHMEQFQTSKAKVTDVWWALQRLEIEL*SHLSMKAALQDTMVKIETCYGAQLSQIQALLSNTEA*LSDIR

Parental  ADMERQNQEYLLLMDIKSRLEQEIATYRSLLEGHDAQDNIIPTTPKA
          .D.E.QNQEYLL.MDIKS.L.QE.A.Y.SLLEGHDAQDN.IPT.PKA
Retrocopy EDTEHQNQEYLLIMDIKSLLDQEVAIYHSLLEGHDAQDNSIPTIPKA

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_1860 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1860 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,