RetrogeneDB ID: retro_mputfur_647

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896931.1:780737..781212(+)
• Located in intron of: ENSMPUG00000000838

Retrocopy information

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

Parental gene information

• Parental gene symbol: TPM2
• Ensembl ID: ENSMPUG00000005359
• Aliases: None
• Description: tropomyosin 2 (beta) [Source:HGNC Symbol;Acc:12011]

Sequence

>retro_mputfur_647
AGAGGTGTGGAGGTTCTCGAGAGCTGAGCCATAAAAGATGAAGAAAAGATGGAACACCAGGAAATCCAACTCAGAGAGGC
CAAGCACACTGCAGAAAAGGCCAATCGAAGTCTGAAAAGAGGGGGCTCAGAAGTCGGTGATTATAGAGGGGGACCCGGAA
CGCCCAGAGGAACGAGCTGAGCTGGCAGAGTCCCGCTGCCGGGAGGTGGATGAGCGGATCCCAGTGACAGACCAGAACCC
GAGGTGTGTGTGTGCTGCTGAGGAACAGCACTCTGAGAGGGAAGACAGCGATGGGGAAGAGGCAAAGATTCTCATGGTTA
AACTCAAGGCGGCAGAGACTGGTGCTGAGTTTGCTGAGACATCGGCAGCCAAGCGGGAGAAGACGATCGAAGATTTGGAA
GATAAACTGAAATGCACCAAAGATGAGCACCTCCGCACACAAAGAACGCTGCACCAGGCTCTGCTTGGTCTGAAT

Alignment

ORF - retro_mputfur_647 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.57 %
• Parental protein coverage: 55.63 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RGMKVIENRAMKDEEKMELQEMQLKEAKHIAEDSDRKYE-EVARKLVILEGELERSEERAEVAESKCGDL
          RG..V.E..A.KDEEKME.QE.QL.EAKH.AE...R....E.A.K.VI.EG..ER.EERAE.AES.C...
Retrocopy RGVEVLES*AIKDEEKMEHQEIQLREAKHTAEKANRSLK>EGAQKSVIIEGDPERPEERAELAESRCREV

Parental  EEELKIVTNNLKSLEAQADKYSTKEDKYEEEIKLLEEKLKEAETRAEFAERSVAKLEKTIDDLEETLASA
          .E.......N.....A.....S..ED...EE.K.L..KLK.AET.AEFAE.S.AK.EKTI.DLE..L...
Retrocopy DERIPVTDQNPRCVCAAEEQHSEREDSDGEEAKILMVKLKAAETGAEFAETSAAKREKTIEDLEDKLKCT

Parental  KEENVEIHQTLDQTLLELN
          K.E......TL.Q.LL.LN
Retrocopy KDEHLRTQRTLHQALLGLN

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_647 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_647 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000009627	2 retrocopies	retro_cjac_1839, retro_cjac_1894,
Erinaceus europaeus	ENSEEUG00000005022	1 retrocopy	retro_eeur_31,
Mustela putorius furo	ENSMPUG00000005359	1 retrocopy	retro_mputfur_647 ,
Mustela putorius furo	ENSMPUG00000007875	1 retrocopy	retro_mputfur_604,