RetrogeneDB ID: retro_mputfur_705

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896937.1:10382169..10383448(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HADHA
• Ensembl ID: ENSMPUG00000008546
• Aliases: None
• Description: hydroxyacyl-CoA dehydrogenase/3-ketoacyl-CoA thiolase/enoyl-CoA hydratase (trifunctional protein), alpha subunit [Source:HGNC Symbol;Acc:4801]

Sequence

>retro_mputfur_705
GGTCAGGTTCTGTGCAAGAAGAATCAACATGGAGCACCATAGAAGGAGGTTAAGTATCAAGCCATTCTTGGTGCAGGGCT
GATCGGTGCCTGCATCGCCCAAATCCCCAAGGATTGGTGCCTAAAGAATGTATATAATGATGCTTCACTAGGTGGGCTGC
GCTGAGGACAGCAACAAGTATTCAGAGAACTGAAAGATAATGTGAAGAAGAAAACCCTATCATCATCTCAAGGGGACTCC
ATTCAGCAACTGACCAGGCAGCTCAATTCCTAGACCTTTGAAAAGGCCAGTTGAAGGCCAAAGGTGATCAGAGCTAGTTC
TGAGGACCTTAGTCTTAAGCACAGATGCTAAAAGAAGTAGAAAGGATGATTCCAGATCACTGTGTTTTTGCCAGTAATAC
ATCAGCTCTCCCAATCAATGAAGTTGCCACTGTCAGACAAAGACCTGAGCAGGTGATTGGCAGACATTACTTCTCTCCTG
TGGAAAAGATGCAGCTGCTGGAGATGATCACCCCCCAAACCCCCCAAAACATCTAAGGACACAATGTTTCTGCTGTAGCA
CTCCTTCTCAAGCAGGGCAAGGTCACCATTGTGATTAAGGATGGGCCTGTCTTCTGGACCAACAAGTGTCTCATACCCAT
GATGTCTGCAGTCATCAGTATTCTCCACAAAGGAGATGACCCTAAGAAGCTGGATTCCCTTACCAGGAGCTTTGGCTTTC
CTGTGGAAGCTGCCACACTGGTGGGATGAAGTTGGCATGGATGTAGCAAACTTCATAGAAGAGGTAGGCAAAGCTTTTAG
GGAGAGGGTTGAAGGTAGAAGCCTAGAGCTTCTGAAGCAGATGGTATCCCAGGGCTTCGGAGGTCATATGTCTGGAAGGG
CTTTCACATCTACCAGGAAAGTGTGAAAAATCAGAGTTTGAATTCTGAGATGCATAGTAGTTTGGTAAGCCAGAATCTAT
CTCCTATCTCTGATGGTTCTTCTGACAATGACATCGGGTACTGCCTGGTGACCAGACTCATGAATGAGGCCATCAAAGCC
TACCAGAAGAGATGTTGGCCACACCAGCAGAGGGATATGTGAGTACAGTCGTTGGACCAGGATGTCCCCTAGCCAGGCCC
CTCCTTGGAGGGTCCTGCTTCCACCCTGTGTTTCTGTGGGGAGCTCCGGAGAATGTGGACCAGCTCAGGAAGAACAAGGC
TGCCTACAGAAAGAAGCTTACCCCAAACCAGCTGCTAACTGGTCTAATAAATGCTACCAGCCCTAATAAAAAGTTTTAC

Alignment

ORF - retro_mputfur_705 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.51 %
• Parental protein coverage: 54.78 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  GQVLCKKNKFGTPQKEAKHLAILGAGLMGAGIAQVSVDKGLRTILKDATLAGLGRGQQQVFKGLNDKVKK
          GQVLCKKN..G.P.KE.K..AILGAGL.GA.IAQ...D..L.....DA.L.GL..GQQQVF..L.D.VKK
Retrocopy GQVLCKKNQHGAP*KEVKYQAILGAGLIGACIAQIPKDWCLKNVYNDASLGGLR*GQQQVFRELKDNVKK

Parental  KALTSFERDSIFSNLTGQLDYQGFEKAD---MVIEAVFEDLSLKHR-VLKEVEAVIPDHCVFASNTSALP
          K.L.S...DSI...LT.QL....FEKA.....VI.A..EDLSLKHR..LKEVE..IPDHCVFASNTSALP
Retrocopy KTLSSSQGDSI-QQLTRQLNS*TFEKAS*RPKVIRASSEDLSLKHR<MLKEVERMIPDHCVFASNTSALP

Parental  INEIAAVSKRPEKVIGMHYFSPVDKMQLLEIIT--TDKTSKDTTASAVAVGLKQGKVIIVVKDGPGFYTT
          INE.A.V..RPE.VIG.HYFSPV.KMQLLE.IT..T.........SAVA..LKQGKV.IV.KDGP.F.T.
Retrocopy INEVATVRQRPEQVIGRHYFSPVEKMQLLEMITPQTPQNI*GHNVSAVALLLKQGKVTIVIKDGPVFWTN

Parental  RCLAPMMSEVLRILQEGVEPKKLDSLTTSFGFPVGAATLV-DEVGVDVAKHVSEDLGKAFGERFGGGSVE
          .CL.PMMS.V..IL..G..PKKLDSLT.SFGFPV.AATLV.DEVG.DVA....E..GKAF.ER..G.S.E
Retrocopy KCLIPMMSAVISILHKGDDPKKLDSLTRSFGFPVEAATLV>DEVGMDVANFI-EEVGKAFRERVEGRSLE

Parental  LLKQMVSRGFLGRKSG-KGFYIYQEGVKNKNVNSDMDGILASLKVPPKSEVSSDEDIQYRLVTRFVNEAV
          LLKQMVS.GF.G..SG.KGF.IYQE.VKN...NS.M...L.S....P.S..SSD.DI.Y.LVTR..NEA.
Retrocopy LLKQMVSQGFGGHMSG<KGFHIYQESVKNQSLNSEMHSSLVSQNLSPISDGSSDNDIGYCLVTRLMNEAI

Parental  MCLQ-EGILATPTEGDIGAVFGLGFP---PCLGGP-FRFVDLYGAQKVVDRLRRYEAAYGKQFTPCQLL-
          ...Q.E..LATP.EG....V.G.G.P...P.LGG..F..V.L.GA...VD.LR...AAY.K..TP.QLL.
Retrocopy KAYQ<EEMLATPAEGYVSTVVGPGCPLARPLLGGSCFHPVFLWGAPENVDQLRKNKAAYRKKLTPNQLLT

Parental  -IDHANSPNKKFY
          ....A.SPNKKFY
Retrocopy GLINATSPNKKFY

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_705 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_705 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000006972	1 retrocopy	retro_dnov_1863,
Homo sapiens	ENSG00000084754	1 retrocopy	retro_hsap_958,
Gorilla gorilla	ENSGGOG00000004918	1 retrocopy	retro_ggor_772,
Macaca mulatta	ENSMMUG00000004380	2 retrocopies	retro_mmul_1987, retro_mmul_787,
Mustela putorius furo	ENSMPUG00000008546	1 retrocopy	retro_mputfur_705 ,
Nomascus leucogenys	ENSNLEG00000001616	2 retrocopies	retro_nleu_1588, retro_nleu_772,
Pongo abelii	ENSPPYG00000012583	2 retrocopies	retro_pabe_2576, retro_pabe_817,
Pan troglodytes	ENSPTRG00000011732	2 retrocopies	retro_ptro_2109, retro_ptro_664,
Ictidomys tridecemlineatus	ENSSTOG00000001593	1 retrocopy	retro_itri_681,