RetrogeneDB ID: retro_mputfur_898

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896967.1:5155496..5156176(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PAFAH1B2
• Ensembl ID: ENSMPUG00000004246
• Aliases: None
• Description: platelet-activating factor acetylhydrolase 1b, catalytic subunit 2 (30kDa) [Source:HGNC Symbol;Acc:8575]

Sequence

>retro_mputfur_898
AACCAAGGAGGCTCAAACCCAGTAGCTATTCCACATGCAGTAGAATATATTCAAAGAGAAGACAGGTAGATGTCTCAGCA
TAACAGATTTGTCCTGGACTATAAAGACAGTGAATCCGATGTACTGTTTGTGGGGGAACTCCATGGTACAGTTGATGCAC
CAATATGAAGTATGGCAAGAGCTTTTATCCCCACTTCATATAAGAAATTTTAGAATTGGAGGAGATGCAACAAGACTAGT
TTCATGCAGACTGAAGGATGGAGAACTGGGGAATATTAAACCCAAGGTCATTATTGTCTGGGAAGGAACAAACAAGCATG
AAAACATGGCAGAAGTAGCAGATGGAATTGAAGCTATCATACAACTTATCAACTCAAAGTAGCTGCAGCCAGACTCTTTA
TACTGGCTTTGTTTCCTTGAGGTGAGAAACCCAACCATCAGAGGTGAAAGAATGTCAAGGTGAACCAGCTCCTTACATTT
TCTCTGCTGAAACTTGCCTGTGTTCAGCACTGGACGCTGATAGGGTTTTGGGCACTGAGAGTGTGCCTTCTCCACCTACC
ACACATTTGATTTTCTGCATCTCACAGGGGGGCAGTTAGACAATGTTCTGCAAACTCCTGTGTGAACTCATTATGCAGTT
GTTGGAGGAAACACCTGCCAAGAAACAAAACACCATTGCC

Alignment

ORF - retro_mputfur_898 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.52 %
• Parental protein coverage: 99.56 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  SQGDSNPAAIPHAAEDIQGDDRWMSQHNRFVLDCKDKEPDVLFVGD-SMVQLMQQYEIWRELFSPLHALN
          .QG.SNP.AIPHA.E.IQ..DR.MSQHNRFVLD.KD.E.DVLFVG..SMVQLM.QYE.W.EL.SPLH..N
Retrocopy NQGGSNPVAIPHAVEYIQREDR*MSQHNRFVLDYKDSESDVLFVGE>SMVQLMHQYEVWQELLSPLHIRN

Parental  FGIGGDTTRHVLWRLKNGELENIKPKVIVVWVGTNNHENTAEEVAGGIEAIVQLINTRQPQ-AKIIVLGL
          F.IGGD.TR.V..RLK.GEL.NIKPKVI.VW.GTN.HEN.A.EVA.GIEAI.QLIN....Q.A....L.L
Retrocopy FRIGGDATRLVSCRLKDGELGNIKPKVIIVWEGTNKHENMA-EVADGIEAIIQLINSK*LQ<ARLFILAL

Parental  LPRGEKPNPLRQKNAKVNQLLKVSLPKLANVQ-LLDTDG-GFVHSDGAISCHDMFDFLHLTGGGYAKI-C
          .P.GEKPN..R.KN.KVNQLL..SL.KLA.VQ..LD.D..GF.H...A.S....FDFLHLTGG......C
Retrocopy FP*GEKPNHQR*KNVKVNQLLTFSLLKLACVQ<ALDADR<GFGH*ECAFSTYHTFDFLHLTGGQLDNV>C

Parental  KPLHELIMQLLEETPEEKQTTIA
          K.L.ELIMQLLEETP..KQ.TIA
Retrocopy KLLCELIMQLLEETPAKKQNTIA

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_898 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_898 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 15 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008628	2 retrocopies	retro_amel_1145, retro_amel_818,
Canis familiaris	ENSCAFG00000013226	1 retrocopy	retro_cfam_1335,
Callithrix jacchus	ENSCJAG00000012698	1 retrocopy	retro_cjac_3325,
Dipodomys ordii	ENSDORG00000011274	1 retrocopy	retro_dord_560,
Felis catus	ENSFCAG00000029945	1 retrocopy	retro_fcat_270,
Homo sapiens	ENSG00000168092	2 retrocopies	retro_hsap_1148, retro_hsap_4661,
Gorilla gorilla	ENSGGOG00000028197	2 retrocopies	retro_ggor_2893, retro_ggor_893,
Macaca mulatta	ENSMMUG00000002050	2 retrocopies	retro_mmul_2481, retro_mmul_892,
Mustela putorius furo	ENSMPUG00000004246	1 retrocopy	retro_mputfur_898 ,
Mustela putorius furo	ENSMPUG00000007574	1 retrocopy	retro_mputfur_351,
Nomascus leucogenys	ENSNLEG00000007337	2 retrocopies	retro_nleu_1096, retro_nleu_946,
Pongo abelii	ENSPPYG00000003907	2 retrocopies	retro_pabe_3621, retro_pabe_953,
Pan troglodytes	ENSPTRG00000004318	2 retrocopies	retro_ptro_3097, retro_ptro_782,
Rattus norvegicus	ENSRNOG00000018032	1 retrocopy	retro_rnor_2585,
Sarcophilus harrisii	ENSSHAG00000011403	1 retrocopy	retro_shar_617,