RetrogeneDB ID: retro_mputfur_609

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896926.1:10857361..10858288(+)
• Located in intron of: ENSMPUG00000010688

Retrocopy information

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

Parental gene information

• Parental gene symbol: EEF1A2
• Ensembl ID: ENSMPUG00000008289
• Aliases: None
• Description: eukaryotic translation elongation factor 1 alpha 2 [Source:HGNC Symbol;Acc:3192]

Sequence

>retro_mputfur_609
GCTGTCCTGATTGTTGTCGCTGTGTTGGTAAATTTGAAGCAGGTTTCTTCAAGAATGGGCAGATCTGTGAGTGTGCCCTT
CTGGGTTACACACTGGGTGTACAACAACTAATTGTTGGTGTTAACAAAATGGATTCCACTGAGCCACCCTATAGCCAGAA
GAGATAAGAGGAAATTGTTAAGGAAGTCAGTACCTACATTAAGAAAATTGGCTACAACCCCGACACAGTAGCATTTGTGC
CAGTTTCTGGTTGGAATGGTGACAACATGCTGGAGCCAAGTGCTAACATGCCTTGGTTCAAGGGATGTAAAGTCATCCAT
AAAGATGGGAATGCCAGTGGAACCATACTGCTTGAAGCTCTGGATTTCATTTTGCTTCACCTCGTCTACCTGACAAGCCC
TTGTGTCTGCCTGTCCAGGATGTCTACAAAATTGGTGGTATTGGTTCTCTCCCTGTGGGCTGAGTGAATACTGGTGTTCT
TAAATCTGGCATGGTGGTCACCTTTGCTCCAGACATTGTTACAATTGAAGTAAAGTCTGTTGAAATGCACCATGAAGCTT
TGAGTGAGGCTCTTCCTGGGGACAGTGTGGACTTCAAGGTCAAGAACATATCTGTCAAAGATGTTTGTTGTCACATTGTG
GCTGGAGACAGCAAAAATGACCCACCAGTGGAAGCAGCTGGTTTCACAGCTCAGGTAATTATCCTGAACCATCCAGGCCA
AATTAGTGCTGGATATGCACCTGTGCCGGATTGTCACATAGCTCATATTGTTTGCAAGTTTGCTAAGTGGAAGGAGAACA
TAGATCATCCTTCTGAAAAAAAGCTGAAGATAGTCCCAAGTTCTTGAAGTCTGGTGATGCTACCATTGTTGATATGGTTC
CTGGCAAGCCTATGTATGTTGAGAGCTTCTCTGACTATCCTCCTCTG

Alignment

ORF - retro_mputfur_609 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.4 %
• Parental protein coverage: 73.46 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  AVLIVAAG-VGEFEAGISKNGQTREHALLAYTLGVKQLIVGVNKMDSTEPAYSEKRYDEIVKEVSAYIKK
          AVLIV.A..VG.FEAG..KNGQ..E.ALL.YTLGV.QLIVGVNKMDSTEP.YS.KR..EIVKEVS.YIKK
Retrocopy AVLIVVAV<VGKFEAGFFKNGQICECALLGYTLGVQQLIVGVNKMDSTEPPYSQKR*EEIVKEVSTYIKK

Parental  IGYNPATVPFVPISGWHGDNMLEPSPNMPWFKGWKVERKEGNASGVSLLEALDTIL-PPTRPTDKPLRLP
          IGYNP.TV.FVP.SGW.GDNMLEPS.NMPWFKG.KV..K.GNASG..LLEALD.IL....R..DKPL.LP
Retrocopy IGYNPDTVAFVPVSGWNGDNMLEPSANMPWFKGCKVIHKDGNASGTILLEALDFIL<ASPRLPDKPLCLP

Parental  LQDVYKIGGIGTVPVGRVETGVLRPGMVVTFAPVNITTEVKSVEMHHEALSEALPGDNVGFNVKNVSVKD
          .QDVYKIGGIG..PVG.V.TGVL..GMVVTFAP...T.EVKSVEMHHEALSEALPGD.V.F.VKN.SVKD
Retrocopy VQDVYKIGGIGSLPVG*VNTGVLKSGMVVTFAPDIVTIEVKSVEMHHEALSEALPGDSVDFKVKNISVKD

Parental  IRRGNVCGDSKSDPPQEAAQFTSQVIILNHPGQISAGYSPVIDCHTAHIACKFAELKEKIDRRSGKKL-E
          .....V.GDSK.DPP.EAA.FT.QVIILNHPGQISAGY.PV.DCH.AHI.CKFA..KE.ID..S.KKL.E
Retrocopy VCCHIVAGDSKNDPPVEAAGFTAQVIILNHPGQISAGYAPVPDCHIAHIVCKFAKWKENIDHPSEKKL<E

Parental  DNPKALKSGDAAIVEMVPGKPMCVESFSQYPPL
          D.PK.LKSGDA.IV.MVPGKPM.VESFS.YPPL
Retrocopy DSPKFLKSGDATIVDMVPGKPMYVESFSDYPPL

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_609 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_609 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 61 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000013249	1 retrocopy	retro_cfam_1007,
Equus caballus	ENSECAG00000022260	1 retrocopy	retro_ecab_802,
Latimeria chalumnae	ENSLACG00000002952	1 retrocopy	retro_lcha_39,
Loxodonta africana	ENSLAFG00000028081	1 retrocopy	retro_lafr_651,
Macropus eugenii	ENSMEUG00000005018	23 retrocopies	retro_meug_1067, retro_meug_110, retro_meug_1160, retro_meug_1240, retro_meug_1334, retro_meug_135, retro_meug_1421, retro_meug_1451, retro_meug_1465, retro_meug_1501, retro_meug_1662, retro_meug_1690, retro_meug_1710, retro_meug_1829, retro_meug_2023, retro_meug_2044, retro_meug_2050, retro_meug_316, retro_meug_601, retro_meug_755, retro_meug_792, retro_meug_850, retro_meug_920,
Myotis lucifugus	ENSMLUG00000016760	1 retrocopy	retro_mluc_1250,
Mustela putorius furo	ENSMPUG00000003816	6 retrocopies	retro_mputfur_1514, retro_mputfur_1643, retro_mputfur_220, retro_mputfur_502, retro_mputfur_844, retro_mputfur_862,
Mustela putorius furo	ENSMPUG00000004271	10 retrocopies	retro_mputfur_1179, retro_mputfur_1276, retro_mputfur_1351, retro_mputfur_1394, retro_mputfur_284, retro_mputfur_355, retro_mputfur_474, retro_mputfur_678, retro_mputfur_920, retro_mputfur_973,
Mustela putorius furo	ENSMPUG00000008289	3 retrocopies	retro_mputfur_1030, retro_mputfur_609 , retro_mputfur_761,
Nomascus leucogenys	ENSNLEG00000010060	2 retrocopies	retro_nleu_11, retro_nleu_1489,
Ornithorhynchus anatinus	ENSOANG00000004908	1 retrocopy	retro_oana_73,
Otolemur garnettii	ENSOGAG00000004630	8 retrocopies	retro_ogar_1067, retro_ogar_2034, retro_ogar_2329, retro_ogar_2497, retro_ogar_2583, retro_ogar_3191, retro_ogar_3270, retro_ogar_643,
Ictidomys tridecemlineatus	ENSSTOG00000028862	1 retrocopy	retro_itri_1028,
Tursiops truncatus	ENSTTRG00000001835	1 retrocopy	retro_ttru_993,
Drosophila melanogaster	FBgn0000557	1 retrocopy	retro_dmel_9,