RetrogeneDB ID: retro_mputfur_351

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896904.1:25656976..25657328(-)
• Located in intron of: ENSMPUG00000007775

Retrocopy information

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

Parental gene information

• Parental gene symbol: PAFAH1B3
• Ensembl ID: ENSMPUG00000007574
• Aliases: None
• Description: platelet-activating factor acetylhydrolase 1b, catalytic subunit 3 (29kDa) [Source:HGNC Symbol;Acc:8576]

Sequence

>retro_mputfur_351
AGCAAGTCCCTGCGGGTGCAGGACATGCAGGACAATGGACACTGAATGTCCCTGCACCTGGGTTCATAGCCCACAGCAAA
GATAAGGAACACAAAGTCTTCTTACTCAGGAATTCCTGGGTCCATCTAATGCACCAGTGCAAGATCTGGCGGGAGCTCTT
TTATTCTCTGCACATTCTTAACTTCGGTATTGGTAGTGACACATAACAGGTGCTTTGGCAGCTGGAGAATTGGGGAGCTG
GAACAAATCTGGCCCAAGACTGTAGTGGTCTGGAGTGAGTACCAACCACCACAGGCACATAGCAGAGCAAGTGACTGGTG
GCATCGAGACCATCGTCCAGCTGGTGAACCAA

Alignment

ORF - retro_mputfur_351 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.29 %
• Parental protein coverage: 51.08 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SKPTPVQDVQGDGRWMSLH-HRFVADSKDKEPEVVFIGDSLVQLMHQCEIWRELFSPLHALNFGIGSDST
          SK...VQD.Q..G..MSLH...F.A.SKDKE..V.....S.V.LMHQC.IWRELF..LH.LNFGIGSD..
Retrocopy SKSLRVQDMQDNGH*MSLH<PGFIAHSKDKEHKVFLLRNSWVHLMHQCKIWRELFYSLHILNFGIGSDT*

Parental  QHVLWRLEN-GELEHIRPKIVVVW-VGTNNHGHTAEQVTGGIKAIVDLVNQ
          Q.VLW.LEN.GELE.I.PK.VVVW.V.TN.H.H.AEQVTGGI..IV.LVNQ
Retrocopy Q-VLWQLEN>GELEQIWPKTVVVW>VSTNHHRHIAEQVTGGIETIVQLVNQ

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_351 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_351 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000019787	1 retrocopy	retro_btau_547,
Canis familiaris	ENSCAFG00000004847	1 retrocopy	retro_cfam_610,
Dasypus novemcinctus	ENSDNOG00000002870	1 retrocopy	retro_dnov_1276,
Macaca mulatta	ENSMMUG00000012172	1 retrocopy	retro_mmul_18,
Mustela putorius furo	ENSMPUG00000004246	1 retrocopy	retro_mputfur_898,
Mustela putorius furo	ENSMPUG00000007574	1 retrocopy	retro_mputfur_351 ,
Rattus norvegicus	ENSRNOG00000020481	1 retrocopy	retro_rnor_976,