RetrogeneDB ID: retro_mputfur_1442

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL897136.1:2215183..2215988(-)
• Located in intron of: ENSMPUG00000000087

Retrocopy information

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

Parental gene information

• Parental gene symbol: TRA2A
• Ensembl ID: ENSMPUG00000013480
• Aliases: None
• Description: transformer 2 alpha homolog (Drosophila) [Source:HGNC Symbol;Acc:16645]

Sequence

>retro_mputfur_1442
ATGAATGATGTAGAGGAGAACAACTTCGAGGGCAGAGAGTCTCGCTCTCAGTCAAAATCTCCAATGGGAACTACTGCTCG
TGTAAAATCGGAGAGCAGGTCAGGGTTTTGTAGTCTCTCAAGGATTTCCAAACACTCAGAATCCCATTCTTGATCAAGAT
CAAAATCCAGGTCGAGGTCAAGGAGGCATTCTCATAGAGGTTACACTTGATCCAGATCCCATTCTCACTCTCATAGGAGA
CGATCTCGAAGTAGGTCATACACACCAGAATACTGGCGTTGAAGAAGCCAAAGTCATTCTCCAATGTGTAACCGGAGAAG
ACATACAGGCAGCAGGGCAAATCCAGATCCCAACACTTGTCCTGGAGGTGTTTGGCCTCATTTTATACACAACAGAGAGA
GATCTTCGTGAAGTATTTTCTCGATATGGACCACTGAGTGGTGTCAATGTGGTTTATGATCAGCAAACTGGTCGGTCACA
AGGATTTGCTTTTGTTTATTTTGAAAGAATAGATGACTCAAAGGAGGCTATGGAAAGGGCAAATGTAATGGAGGTGGATG
GTAGAAGAATTCGAGTGGATTATTCTATTACCAAGAGAGCGCACACACCTACACCTGGCATCTACATGGGCAGACCAACT
CATAGTGGTGGTGGCAGTGGTGGAGGTGGTTGTGGAGGTAGAGGAGGTGGCAGGTATCGAGATTCTTACTATGACAGAGG
ATATGATCGTGGATATGACAGATATGAAGACTCTGATTACCGGTACAGAAGATCACCTTCTCCTTACTATAGTCGGTACA
GATCA

Alignment

ORF - retro_mputfur_1442 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.44 %
• Parental protein coverage: 95.73 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSDVEENNFEGRESRSQSKSPTGTPARVKSESRSGSRSPSRVSKQSESHSRSRSKSRSRSRRHSHRRYTR
          M.DVEENNFEGRESRSQSKSP.GT.ARVKSESRSG..S.SR.SK.SESHS.SRSKSRSRSRRHSHR.YT.
Retrocopy MNDVEENNFEGRESRSQSKSPMGTTARVKSESRSGFCSLSRISKHSESHS*SRSKSRSRSRRHSHRGYT*

Parental  SRSHSHSHRRRSRSRSYTPEYRRRRSRSHSPMSNRRRHTGSRANPDPNTCLG-VFGLSLYTTERDLREVF
          SRSHSHSHRRRSRSRSYTPEY.R.RS.SHSPM.NRRRHTGSRANPDPNTC.G.VFGL.LYTTERDLREVF
Retrocopy SRSHSHSHRRRSRSRSYTPEYWR*RSQSHSPMCNRRRHTGSRANPDPNTCPG>VFGLILYTTERDLREVF

Parental  SRYGPLSGVNVVYDQRTGRSRGFAFVYFERIDDSKEAMERANGMELDGRRIRVDYSITKRAHTPTPGIYM
          SRYGPLSGVNVVYDQ.TGRS.GFAFVYFERIDDSKEAMERAN.ME.DGRRIRVDYSITKRAHTPTPGIYM
Retrocopy SRYGPLSGVNVVYDQQTGRSQGFAFVYFERIDDSKEAMERANVMEVDGRRIRVDYSITKRAHTPTPGIYM

Parental  GRPTHSGGGGGGGGGGGGGGGRRRDSYYDRGYDRGYDRYEDYDYRYRRRSPSPYYSRYRS
          GRPTH..................RDSYYDRGYDRGYDRYED.DYRY.RRSPSPYYSRYRS
Retrocopy GRPTHXXXXXXXXXXXXXXXXXXRDSYYDRGYDRGYDRYEDSDYRY-RRSPSPYYSRYRS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Mustela putorius furo was not studied using RNA-Seq expression data.

ChIP-Seq

Mustela putorius furo was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mputfur_1442 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1442 was not experimentally validated.

Homology

Retrocopy orthology:

Mustela putorius furo 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 13 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001130	1 retrocopy	retro_chof_974,
Callithrix jacchus	ENSCJAG00000001509	1 retrocopy	retro_cjac_1759,
Echinops telfairi	ENSETEG00000007250	2 retrocopies	retro_etel_323, retro_etel_692,
Homo sapiens	ENSG00000164548	1 retrocopy	retro_hsap_386,
Gorilla gorilla	ENSGGOG00000009053	1 retrocopy	retro_ggor_391,
Mustela putorius furo	ENSMPUG00000001855	2 retrocopies	retro_mputfur_1539, retro_mputfur_956,
Mustela putorius furo	ENSMPUG00000003157	1 retrocopy	retro_mputfur_673,
Mustela putorius furo	ENSMPUG00000013480	1 retrocopy	retro_mputfur_1442 ,
Nomascus leucogenys	ENSNLEG00000014794	1 retrocopy	retro_nleu_1481,
Otolemur garnettii	ENSOGAG00000009733	3 retrocopies	retro_ogar_1966, retro_ogar_2558, retro_ogar_3027,
Pongo abelii	ENSPPYG00000017728	1 retrocopy	retro_pabe_324,
Pan troglodytes	ENSPTRG00000018988	1 retrocopy	retro_ptro_299,
Sorex araneus	ENSSARG00000012900	1 retrocopy	retro_sara_467,