RetrogeneDB ID: retro_mputfur_277

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896901.1:9262273..9263209(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TRAFD1
• Ensembl ID: ENSMPUG00000002402
• Aliases: None
• Description: TRAF-type zinc finger domain containing 1 [Source:HGNC Symbol;Acc:24808]

Sequence

>retro_mputfur_277
ATGTGTCCTATATGCAAGGAACCATTTCCCAAATCTGACATGGAGAGTCACATGGCTACAGAACCTTGTCAGGTGACCTG
AAAATGTCAAATAAGTTGGAGGAGAGGCAGATAAAGAAGGGTGAGGAGACTGAGGGTCCTCTATGGCTTACCCTTTGCCA
GCACTGTGATTTCGAACTTTTTGTTCTCAAACTGAAGGACGATGGAGATTACTGTGGTGCCCGGCTGAAGTTTTGGGGCA
GTTGTGGGTGCAATGTCTTGGTGAAAGATCTGAAGACTCATCCTGATGCTTGTGAAAGAGACAGGGAGGAAAAGAGAGAT
GAGGTTGCCATGCCTCCTAAAGCAACTGATGAGTCCGGGGGTCAAGATGGCATCTACTTTGCATCCCAGCTTCTCAGGCA
AATTGAGGCTCTGGACCCACCTATGAGGCTTCTCCAAAGACCTCTGGGAGCCTTTGAATCAGACACTTTCCATAGTAGAA
CTACCAACCAAAGGAACACGACAGCCCAGATTCCAGCTCAGAATAATCTACTGGAAGAACGAGAAAGGGAGGGAAGGAAT
AGAACCTGACAGCCCCCAAAAGAAGACAATGCAAACTTGGACTTCAGGTTGGCCCTAAGTCTGGAAAATGAAGGACAGGC
CTGCAATGTGGAAAAGCAGGACTTCTGGAGGGCTGCCTGTGGTACAGACAAGTCCCTTGAAGCGTCCAAAGCTCTGAATG
ACATGAAAGGTGCAGCTGACCAGGCCATGTTGCCTTGTGAATTTTGGGAGGAGCTCTACACAGAGGAACTGCTGGTTGAC
TATCAGACAATCTGTAGTCTTTCCTGTGCCTTACCTACACTCAGTATGGGCAGTACTTCCCCCATAAGGGGTGGAGGACC
CTGATGTCATCTTCCAAAAGTCTTTGCAGCAGGCTGTGAGTAACCAGTTCGACTCT

Alignment

ORF - retro_mputfur_277 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.97 %
• Parental protein coverage: 57.69 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MCPICKEPFPKSDMESHMATEHCQVTCKC-NKKLEKRQLKKHEETECPLRLALCQHCDLELSVLKLKDHE
          MCPICKEPFPKSDMESHMATE.CQVT.KC...KLE.RQ.KK.EETE.PL.L.LCQHCD.EL.VLKLKD..
Retrocopy MCPICKEPFPKSDMESHMATEPCQVT*KC<SNKLEERQIKKGEETEGPLWLTLCQHCDFELFVLKLKDDG

Parental  DYCGARTELCGSCGRNVLVKDLKTHPDVCGRDGEEKRDEVAMPPNAYDESWGQDGIWIASQLLRQIEALD
          DYCGAR....GSCG.NVLVKDLKTHPD.C.RD.EEKRDEVAMPP.A.DES.GQDGI..ASQLLRQIEALD
Retrocopy DYCGARLKFWGSCGCNVLVKDLKTHPDACERDREEKRDEVAMPPKATDESGGQDGIYFASQLLRQIEALD

Parental  PPMRIPRRPLRAFESDILHSRTSNQRNMAAQFPIQNNLLEEQERQERNRTRQPPKEGGEDSANLDFMLAL
          PPMR...RPL.AFESD..HSRT.NQRN..AQ.P.QNNLLEE.ER..RNRT.QPPKE...D.ANLDF.LAL
Retrocopy PPMRLLQRPLGAFESDTFHSRTTNQRNTTAQIPAQNNLLEEREREGRNRT*QPPKE---DNANLDFRLAL

Parental  SLQNEGQARSVAEQDFWRAVCGTDQSLEGSSALNDMKGAADQTMLPCEFCEELYPEELLIDHQTSCNPSC
          SL.NEGQA..V..QDFWRA.CGTD.SLE.S.ALNDMKGAADQ.MLPCEF.EELY.EELL.D.QT.C..SC
Retrocopy SLENEGQACNVEKQDFWRAACGTDKSLEASKALNDMKGAADQAMLPCEFWEELYTEELLVDYQTICSLSC

Parental  ALPARSVGSTSPK-GVEDPDVIFQKFLQQATSNQLDS
          ALP..S.GSTSP..GVEDPDVIFQK.LQQA.SNQ.DS
Retrocopy ALPTLSMGSTSPI>GVEDPDVIFQKSLQQAVSNQFDS

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_277 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_277 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Mustela putorius furo	ENSMPUG00000002402	1 retrocopy	retro_mputfur_277 ,