RetrogeneDB ID: retro_mputfur_1272

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL897064.1:3690680..3691455(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ODC1
• Ensembl ID: ENSMPUG00000013321
• Aliases: None
• Description: ornithine decarboxylase 1 [Source:HGNC Symbol;Acc:8109]

Sequence

>retro_mputfur_1272
GCAAAAGAGCTGCATATTGATATCATCGGTGTCAGCTTCCTTGTAGGAAGTGGTTGTACTGAGACCTCTGTGCATACTAT
CCCTGAGACCAGCACTGTCTTTGACATGGGAGCTGAGCTTGGTTTCAACATGGTACCTGCTTGATATCAAATGTGGCTTT
CTTGGATCTGAAGATGTAAAGCTTAAATTTAAAGAGATCACCAGTGTTATCAACCTAGCACTGGACAAGTGTTTTCCAGC
AGGCTTAGGAGTGAGAATCATAGCTGAGTGCAGCAGATGAGATGTTGCATCAGCTTTCATGCTTGTAGTTAATATCATTG
CCAAAAAAAATCTTGTACTAAAGGAACAGACAGACTCTGATGATGAAGATGAGTTGAACGAACAAACCTTTAGGTATTAC
ATGAATAATGGAGTATATGAATCATTTAATTGCATTATTTGTGATCATGCACACATAAAGTCCCTCATGCAGAAGAAACC
CAAACCAGCTTAGAAGTAGTATTCAACCAGCATATGGGTACCAACATGTGACAGCCTTAATTGCATTGTTGAGTGTTGTG
ACTTGCCCTAGATGCATATGGGCGATTGGACGCTCTTTGAAAACATGGGTGCTTACACTGTTCCTACTGTTTCTACTTTC
AAAGGGTTCCAGAGGCCGACGATCTACTATGTGACTTCGGAGCCAACATGGCAACCGATGCAGCAGATCCAGAACCATGA
GTTCCTGCTGGAAGGAGAGGAGCAGGATGTCAGCACTCAGCCTATGTCCCATGCT

Alignment

ORF - retro_mputfur_1272 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.5 %
• Parental protein coverage: 56.18 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ARELNIDIIGVSFHVGSGCTDPETFVQAISDARCVFDMGAEVGFNM-YLLDIGGGFPGSEDVKLKFEEIT
          A.EL.IDIIGVSF.VGSGCT..ET.V..I.....VFDMGAE.GFNM.YLLDI..GF.GSEDVKLKF.EIT
Retrocopy AKELHIDIIGVSFLVGSGCT--ETSVHTIPETSTVFDMGAELGFNM>YLLDIKCGFLGSEDVKLKFKEIT

Parental  SVINPALDKYFPADSGVSIIAEPGRYYVASAFTLAVNIIAKK-LVLKEQTGSDDEEESNEQTFMYYVNDG
          SVIN.ALDK.FPA..GV.IIAE..R..VASAF.L.VNIIA...LVLKEQT.SDDE.E.NEQTF.YY.N.G
Retrocopy SVINLALDKCFPAGLGVRIIAECSR*DVASAFMLVVNIIAXXXLVLKEQTDSDDEDELNEQTFRYYMNNG

Parental  VYGSFNCILYDHAHVKPLLQKRPKPDEKYYSTSIWGPTCDGLDRIVERCDLPEMHVGDWMVFENMGAYTV
          VY.SFNCI..DHAH.K.L.QK.PKP..K.YSTSIW.PTCD.L..IVE.CDLP.MH.GDW..FENMGAYTV
Retrocopy VYESFNCIICDHAHIKSLMQKKPKPA*K*YSTSIWVPTCDSLNCIVECCDLP*MHMGDWTLFENMGAYTV

Parental  AAASTFNGFQRPTIYYVMSGPTWQLMQQIQSRDFPAELEEPDASPLPVSCA
          ...STF.GFQRPTIYYV.S.PTWQ.MQQIQ...F..E.EE.D.S..P.S.A
Retrocopy PTVSTFKGFQRPTIYYVTSEPTWQPMQQIQNHEFLLEGEEQDVSTQPMSHA

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_1272 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1272 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 10 parental genes, and 44 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000011415	1 retrocopy	retro_amel_414,
Bos taurus	ENSBTAG00000004256	1 retrocopy	retro_btau_552,
Choloepus hoffmanni	ENSCHOG00000010898	2 retrocopies	retro_chof_1618, retro_chof_2111,
Dasypus novemcinctus	ENSDNOG00000018474	31 retrocopies	retro_dnov_1032, retro_dnov_1128, retro_dnov_1129, retro_dnov_1137, retro_dnov_1212, retro_dnov_1235, retro_dnov_1418, retro_dnov_1434, retro_dnov_1493, retro_dnov_1594, retro_dnov_1595, retro_dnov_1677, retro_dnov_1778, retro_dnov_1810, retro_dnov_1813, retro_dnov_2016, retro_dnov_2027, retro_dnov_2108, retro_dnov_2147, retro_dnov_2180, retro_dnov_2212, retro_dnov_2461, retro_dnov_2551, retro_dnov_2564, retro_dnov_392, retro_dnov_740, retro_dnov_766, retro_dnov_781, retro_dnov_923, retro_dnov_943, retro_dnov_958,
Loxodonta africana	ENSLAFG00000005330	2 retrocopies	retro_lafr_218, retro_lafr_850,
Myotis lucifugus	ENSMLUG00000010423	1 retrocopy	retro_mluc_281,
Macaca mulatta	ENSMMUG00000020441	2 retrocopies	retro_mmul_157, retro_mmul_1645,
Monodelphis domestica	ENSMODG00000014779	1 retrocopy	retro_mdom_262,
Mustela putorius furo	ENSMPUG00000013321	1 retrocopy	retro_mputfur_1272 ,
Ictidomys tridecemlineatus	ENSSTOG00000000386	2 retrocopies	retro_itri_1751, retro_itri_801,