RetrogeneDB ID: retro_mputfur_718

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896940.1:5285010..5286284(-)
• Located in intron of: ENSMPUG00000001219

Retrocopy information

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

Parental gene information

• Parental gene symbol: TOX4
• Ensembl ID: ENSMPUG00000000181
• Aliases: None
• Description: TOX high mobility group box family member 4 [Source:HGNC Symbol;Acc:20161]

Sequence

>retro_mputfur_718
GGAAATGACAATTACCTGATGATCACAGGGTCCTCACACCCCTTCCTCTCAGGTGCCAGGACATTCCATACACCAAGCTT
GGGAGATGAGGTATTTGAAACCCCACCTATCTCCTTGGATTCTGTTCCCTCACTGACTATCTCAGATGTGTTTGGTCACT
TTGAAGACCTGGAAAACCCCTCCCCCTCTCAGGATGGCAGCTTCTCAGCCCAGTATGGGGTCTAGACATTGGATATGCCT
GTAGCCGTGACCCATGGCTTGATGGAGCAAGGTTGGAGGCTCCTGACTGGGGGCTTGACCATGGACTTGGACCACTCTTT
AGGAGCTCAGTAGAAGTGCAGCCCACCTGTTACAATAGATGTATCAATGACAGACGCGCCTCTGGTGCGATGGGGCATAG
CCAGTTGACCACCATTTATCAGTTGAACCAAGTTCTCAACTCAGTTTGAGCTTAGGTGGCATTCTGCCACCTGCCAAGTC
ACCCACAAATCGTCTTTCAGCCACCACTTCACCTACTAGTTCACTTTACGAGGTTGGTGTTGAGGATTTCCAGAGGCAAC
CAGCCAGAAGACAGTTGTGAAATCAGGAAAAAAGCAGAAGGCCCCAAAGATGAGAAAAAAGAAAGATCCTAATGAGCCTC
AGAAGCCAGATTCAGCATCTGCTTTAGTCTTCCATGATACACAGGCTGCCATCAAGGGACAGAATCCCAGTGCCACTTTT
GGGGAGGTTTCAAAAATTGTGGCCGCCATGTGGGATAGTCTTAGTGAGGAGCAAAATCAGGTGTGTAAGAGAAAAACCAA
AGCTGCCAAGAAAGAGCATCTGAAGGTTCTGACTGCACATAAAGACACTCAAGAGTGTCAGGCCACTGTGGGAACAGGAG
AATTGGACCCATTGCTGCTGTCACAGACTCCTCCACCTCTTGTGGCTACTGTTGACCCAACGTCTCTAGCACCAGCCTCA
ACAGAGCCCCTTGCCCTGTCCCCTCCCATTGTTAACTCCACTCTTTCCTCCTATGTGGCAAACCAAGCATCTTCTGGGGC
TGGGGCTTAGCTCCATGTCACCATGTTGGTTATTACCAAACAGCTGTTGCCCTCTTCTATGACTATATCTCAAGGAGGGA
TGGTTTCCATTATCCCAACCACAGTGGTGACCTCCCAGGGGATCCATCCAGGCCAAACCAGTGCAGCCACTCTCCAGCCC
AGTCAACAAGGCCAAATTATCACTTGCTCAGTATTGCAGCAGCAGCAGCAGCTTCCACACTGACAACACCCCCT

Alignment

ORF - retro_mputfur_718 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.29 %
• Parental protein coverage: 69.95 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  GNDNYLTITGPSHPFLSGAETFHTPSLGDEEFEIPPISLDSDPSLAVSDVVGHFDDLADPSSSQDGSFSA
          GNDNYL.ITG.SHPFLSGA.TFHTPSLGDE.FE.PPISLDS.PSL..SDV.GHF.DL..PS.SQDGSFSA
Retrocopy GNDNYLMITGSSHPFLSGARTFHTPSLGDEVFETPPISLDSVPSLTISDVFGHFEDLENPSPSQDGSFSA

Parental  QYGVQTLDMPVGMTHGLMEQGGGLLSGGLTMDLDHSIGTQYSANPPVTIDVPMTD-MTSGLMGHSQLTTI
          QYGV.TLDMPV..THGLMEQG..LL.GGLTMDLDHS.G.Q....PPVTIDV.MTD...SG.MGHSQLTTI
Retrocopy QYGV*TLDMPVAVTHGLMEQGWRLLTGGLTMDLDHSLGAQ*KCSPPVTIDVSMTD<RASGAMGHSQLTTI

Parental  DQ-SELSSQLGLSLGGGTILPPAQSPEDRLSTTPSPTSSLHEDGVEDFRRQLPS-QKTVVVEAGKKQKAP
          .Q..E.SSQL.LSLGG..ILPPA.SP..RLS.T.SPTSSL.E.GVEDF.RQ.P..QKT.VV..GKKQKAP
Retrocopy YQ<VEPSSQLSLSLGG--ILPPAKSPTNRLSATTSPTSSLYEVGVEDFQRQ-PA<QKT-VVKSGKKQKAP

Parental  KKRKKKDPNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMWDSLGEEQKQVYKRKTEAAKKE
          K.RKKKDPNEPQKP.SA.AL.F.DTQAAIKGQNP.ATFGEVSKIVA.MWDSL.EEQ.QV.KRKT.AAKKE
Retrocopy KMRKKKDPNEPQKPDSASALVFHDTQAAIKGQNPSATFGEVSKIVAAMWDSLSEEQNQVCKRKTKAAKKE

Parental  YLKALAAYKDNQECQATVETVELDPVPPSQTPSPPPMATVDPASPAPASTEPPALSPSIVVNSTLSSYVA
          .LK.L.A.KD.QECQATV.T.ELDP...SQTP.PP..ATVDP.S.APASTEP.ALSP.I.VNSTLSSYVA
Retrocopy HLKVLTAHKDTQECQATVGTGELDPLLLSQTP-PPLVATVDPTSLAPASTEPLALSPPI-VNSTLSSYVA

Parental  NQASSGAGGQPNITKLIITKQMLPSSITMSQGGMVTVIPATVVTSRGIQLGQTSTATIQPSQQAQIVTRS
          NQASSGAG.....T.L.ITKQ.LPSS.T.SQGGMV..IP.TVVTS.GI..GQTS.AT.QPSQQ.QI.T.S
Retrocopy NQASSGAGA*LHVTMLVITKQLLPSSMTISQGGMVSIIPTTVVTSQGIHPGQTSAATLQPSQQGQIITCS

Parental  VLQ-AAAAAAASMQLPP
          VLQ.AA.AAA.....PP
Retrocopy VLQ<AA-AAASTLTTPP

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_718 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_718 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 11 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006261	1 retrocopy	retro_amel_858,
Canis familiaris	ENSCAFG00000005647	2 retrocopies	retro_cfam_1625, retro_cfam_1698,
Choloepus hoffmanni	ENSCHOG00000000714	2 retrocopies	retro_chof_2239, retro_chof_631,
Homo sapiens	ENSG00000092203	1 retrocopy	retro_hsap_2970,
Macropus eugenii	ENSMEUG00000010501	1 retrocopy	retro_meug_1384,
Mustela putorius furo	ENSMPUG00000000181	1 retrocopy	retro_mputfur_718 ,
Mus musculus	ENSMUSG00000016831	1 retrocopy	retro_mmus_11,
Nomascus leucogenys	ENSNLEG00000014556	1 retrocopy	retro_nleu_2027,
Pongo abelii	ENSPPYG00000005598	1 retrocopy	retro_pabe_2463,
Pan troglodytes	ENSPTRG00000006126	1 retrocopy	retro_ptro_2008,
Sus scrofa	ENSSSCG00000029203	1 retrocopy	retro_sscr_361,