RetrogeneDB ID: retro_mputfur_478

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896912.1:7646735..7647544(+)
• Located in intron of: ENSMPUG00000003430

Retrocopy information

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

Parental gene information

• Parental gene symbol: MDH2
• Ensembl ID: ENSMPUG00000016000
• Aliases: None
• Description: malate dehydrogenase 2, NAD (mitochondrial) [Source:HGNC Symbol;Acc:6971]

Sequence

>retro_mputfur_478
CATACACCCTGAGTTGCTGCTGATCTGAGCTGCACGGAGATTGGAGCAACCGGGAAGGGCTGCCTCACACCCGAGTAGCT
GCCAGACTGCTCGAAAGGTTGCCATGGGGTGGTTATTCCAGCAGGAGCCCCGAGGAAACCATGCATGACAGGGGTGACCT
GTCCAACACTAGTGCCCCAATTGTGGCCACCCTGGCTACCTTCTGCCCCTGGCATTGCCCTGAGGCATGAGCGGCATCCT
TTCAAATCTGGTTAACTCCATCATCCCAATGGCAACAGAAACTTTCAAGAAACACGGAGCACACACCTTAATAAAATCTT
TGGAGTGACAACCTTGGACATTGCCAGAGCCAAGACTTTTATTATAGAACTGAGGGGTTTGGCTCCTGCTTGCATCAATG
TTCCTGTTACTGGTGGCCATGCTGGGAAGACTGTCATCCTCCGATCTCCCCAAGAACTCTCAAGGTGGACGTTCCTCCAG
AACCAGCTGACAGCTGTTACTGGGAAGATTCAGGAAGCCCACATAGAAGAGGTGAAGGTCTAAGCCAGAGCAGGCTCTGC
TGCCCTGTCCATGGCTATGTGGGAGCCGAGTTTGTCTTCTCCCTTGTGGAGGCAATGAACAGGAAGGAAGGAGTTGTTCA
GTGTTTCTTCATTAAGTCCCAAGAAACAGACGGGGCTTATTTCTCTACACCATTATTCCTGGGGGCAAAGGGCATCTAGA
AGAATCCAGGCATCGATAAGATCTCCCCTTCCAAAGAGAAGATGATAGCAGAAGCCATCCCTGAGCTGAAGGCCTCCATC
AAGAACGGA

Alignment

ORF - retro_mputfur_478 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.12 %
• Parental protein coverage: 77.21 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  HTPGVAADLSHIETRATVKGYLGPEQLPDCLKGCDVVVIPAGVPRKPGMT-RDDLFNTNASIVATLTAAC
          HTP.VAADLS..E..AT.KG.L.PE.LPDC.KGC..VVIPAG.PRKP.MT.R.DL.NT.A.IVATL...C
Retrocopy HTP*VAADLSCTEIGATGKGCLTPE*LPDCSKGCHGVVIPAGAPRKPCMT<RGDLSNTSAPIVATLATFC

Parental  AQHCPEA-MICIISNPVNSTIPIATEVFKKHGAY-NPNKIFGVTTLDIVRANTFIAELKGLDPARVNVPV
          ..HCPEA.M..I.SN.VNS.IP.ATE.FKKHGA....NKIFGVTTLDI.RA.TFI.EL.GL.PA..NVPV
Retrocopy PWHCPEA<MSGILSNLVNSIIPMATETFKKHGAH<HLNKIFGVTTLDIARAKTFIIELRGLAPACINVPV

Parental  IGGHAGKTII-PLISQCTPKVDLP-QDQLTAVTGRIQEAGTEVVKAKAGAGSATLSMA-YAGARFVFSLV
          .GGHAGKT.I.P.IS..T.KVD.P.Q.QLTAVTG.IQEA..E.VK..A.AGSA.LSMA.Y.GA.FVFSLV
Retrocopy TGGHAGKTVI<PPISPRTLKVDVP>QNQLTAVTGKIQEAHIEEVKV*ARAGSAALSMA<YVGAEFVFSLV

Parental  DAMNGKEGVVECSFVKSQEADCGYFSTPLLLGKKGIEKNLGIGKISPFEEKMIAEAIPELKASIKKG
          .AMN.KEGVV.C.F.KSQE.D..YFSTPL.LG.KGI.KN.GI.KISP..EKMIAEAIPELKASIK.G
Retrocopy EAMNRKEGVVQCFFIKSQETDGAYFSTPLFLGAKGI*KNPGIDKISPSKEKMIAEAIPELKASIKNG

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_478 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_478 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 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010846	1 retrocopy	retro_amel_361,
Canis familiaris	ENSCAFG00000013515	2 retrocopies	retro_cfam_182, retro_cfam_41,
Myotis lucifugus	ENSMLUG00000017795	1 retrocopy	retro_mluc_1948,
Monodelphis domestica	ENSMODG00000013680	1 retrocopy	retro_mdom_1711,
Mustela putorius furo	ENSMPUG00000016000	2 retrocopies	retro_mputfur_1607, retro_mputfur_478 ,
Mus musculus	ENSMUSG00000019179	1 retrocopy	retro_mmus_2451,
Otolemur garnettii	ENSOGAG00000009705	1 retrocopy	retro_ogar_3068,
Pteropus vampyrus	ENSPVAG00000003397	1 retrocopy	retro_pvam_981,
Tupaia belangeri	ENSTBEG00000003190	1 retrocopy	retro_tbel_440,
Drosophila melanogaster	FBgn0262559	2 retrocopies	retro_dmel_54, retro_dmel_76,