RetrogeneDB ID: retro_mputfur_1114

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL897020.1:2555160..2555847(+)
• Located in intron of: ENSMPUG00000016720

Retrocopy information

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

Parental gene information

• Parental gene symbol: THYN1
• Ensembl ID: ENSMPUG00000009185
• Aliases: None
• Description: thymocyte nuclear protein 1 [Source:HGNC Symbol;Acc:29560]

Sequence

>retro_mputfur_1114
ATGCCTAGACCATGGAAGAGGCTGACTGGGGCTGTCGAGCCTGCTGGGCCGGACAAGAAGGGACTAGTAGGAAGACGTAC
CAATACTGAGAACCCAGTGGGGGCATCAACTCAAGTGGATAACTCCAGCCCTCAGGAGGCTTCAGCCTCTAAAAACGGTG
GGAAGAATCTAAGCAGTTACTGACTGATGACGTCAGAGCCAGGGAGCCCACTAGACAAAAGTGTAGAGGTGAAGTTCAGG
GCTGGGGATCTTAGAGCCCAGCCCGAGCAGACAGTATACTGGGATGACCTTCGCAACTCCCAGCCCCAGAACTTCCTGGG
ACCCTGAAGTGGGAGGAGGAAGGCTTCTACCAGAGCAACTGCGAAGAACCAGGCCTCAAAGGACTTGGGAAGCTTGAGAG
GGAGGCTTCCTCAGACCACACACAGTTTGAGAAAAATAATTCCCATTATGATCCATCCAGCAAAGAAGACAACCCCAAAT
GGCCCAAGGTCAACGTATGGTTTGTTCAGATGATGAAGTTATTTCATGACCCTGGTGCCTGAGCTCAAAACCCATCCCCA
AGCTCACAAAGCCCCTGGAGGTCCCTTAAAAAATAGGGCTCTCTCCACTTGCCAGAGGCTCTCCATTCAGCCCCTGACCC
GAGAGGAGTTTGATTTTATTTTGAGGCTGCAGGAAAAGGAACCAAGT

Alignment

ORF - retro_mputfur_1114 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.07 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MPKPRKRLGGA---AGPDNKGPAGKHTKTKNPAGALAAMGNSSPEKTSASKNCGKNLSSYWLMKSEPESR
          MP.P.KRL.GA...AGPD.KG..G..T.T.NP.GA.....NSSP...SASKN.GKNLSSY.LM.SEP.S.
Retrocopy MPRPWKRLTGAVEPAGPDKKGLVGRRTNTENPVGASTQVDNSSPQEASASKNGGKNLSSY*LMTSEPGSP

Parental  LEKGVDVKFSIEDLKAEPKQTACWDGVRNYQARNFL-RAMKLEQEAFFYHSNCKEPGIAGLVKIVKEAYP
          L.K.V.VKF...DL.A.P.QT..WD..RN.Q..NFL....K.E.E..FY.SNC.EPG..GL.K...EA..
Retrocopy LDKSVEVKFRAGDLRAQPEQTVYWDDLRNSQPQNFL<GTLKWEEEG-FYQSNCEEPGLKGLGKLEREASS

Parental  DHTQFEKNSPYYDPSSKEDNPKWSMVDVQFVRMMK-RYITLA-ELKTHYQAHKTTGGPLKDMALFTRQRL
          DHTQFEKN...YDPSSKEDNPKW..V.V.FV.MMK....TL..ELKTH.QAHK..GGPLK..AL.T.QRL
Retrocopy DHTQFEKNNSHYDPSSKEDNPKWPKVNVWFVQMMK>YFMTLVPELKTHPQAHKAPGGPLKNRALSTCQRL

Parental  SVQTLTPEEFYFILSLEEKEPS
          S.Q.LT.EEF.FIL.L.EKEPS
Retrocopy SIQPLTREEFDFILRLQEKEPS

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_1114 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1114 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000007294	1 retrocopy	retro_amel_300,
Canis familiaris	ENSCAFG00000009772	1 retrocopy	retro_cfam_877,
Cavia porcellus	ENSCPOG00000006567	1 retrocopy	retro_cpor_1542,
Felis catus	ENSFCAG00000007419	1 retrocopy	retro_fcat_946,
Macropus eugenii	ENSMEUG00000008297	1 retrocopy	retro_meug_287,
Mustela putorius furo	ENSMPUG00000009185	1 retrocopy	retro_mputfur_1114 ,