RetrogeneDB ID: retro_mputfur_1123

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL897021.1:1123348..1124673(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TUBB
• Ensembl ID: ENSMPUG00000011690
• Aliases: None
• Description: tubulin, beta class I [Source:HGNC Symbol;Acc:20778]

Sequence

>retro_mputfur_1123
GTGAGGGAAATTGTGCACATCCAGGCCAGTTAGTGTGGTAACCAGATCAGTGCGAAGTTCTGGGAGGTAATCGGTAATGA
ACATAGCATCGACCCCACTGGAAGCTACCACAGTGACAGTGACCTGCAGCTGGATCACATCTCCACATTCGACAATGAAG
CTACACATGGCAAATATGTTCCTCGTGCTATCTTGGTGGATCTAGAACCAGGGACCATGGACTCTGTTTGCTCAGGTCCT
TTTGGGCAGATACTAAGACCAGACAACTTTGTTTTTTGGTCACTCTGGGGCAGGAAACAACTGGGCCAAGGGCCACTATA
CAGAGGGGGCTGAGCTGGTTGACTCAGTCCTGGATGTGGTGAGGAAGGAGGCCGAGAGCTGTGACTGCCTGCAGGGCTTC
CAGCTGACCCATTCACTGGGTGAGGGCACAGGCTCTGGAATGGGCATCTTGCTCATCAGCAAGATCTGAGAAGAGTATCC
CAACCACATCATGAACACCTTCAGTGTGGTACCCTCACCCAAAGTGTCTGACACTGTGGTCGAGCCCTATAATGTCACCC
TTTCTATCCATCAGTTGGTAGAGAACACAGATGAGTCATATTGCATTGACAATGAGGCCCTTTATGACATCTGCTTCTGC
ACTCTCAAGCTGACCATACCAACTTATGGAGACCAGAACCACTTCGTCTCAGCCACCACAAGTGGTGTCACCACCTGTCT
CCACTTCCCTGGTCAGCTCATTGCTGACCTCCAGAAGCAGCCGTCAACATGCATTCCCACAGCTCCACTTCTTCATCCTG
GATTTGCACCTCTAACCAGCTGTGGAAGCCAGCAGTATCAGGCCCTCACTATGCCTGAACTCACCCAGCAGGTCTCTGAT
GCCAAGAACAAGATGGCTGCCTGTGACCCCTGCCATGGCTGTTACCTCACTGTGGCTGCTGTCTTCATGGGTGAATGTCC
ATGAAGGAGGTAGATGAGCAGATGCTCAACATGCAAAAAAGAATAGTAGCTACTTTGTGAAGTGGATCCCCAACAACGTC
AAGATAGGAGTCTGCAATATCCCACCTTGTGGCTTCAAGATGGCAGTCACCTTCATTGGAAATAGCACAGCCATCCAGGA
GTTCTTCAAGTGCATCTCAGAGCAGTTCATGGCCATGTTCCTGTACCAGGCCTTCCTCTTCTGGTACACAGGTGAGGGCA
TGGACAAGATGGAATTCACTGAAGCTGGGAGCAACATGAATGACCTTGTCTCTGAGTACCTGCAGTACCAGGATGCCACC
ACAGAAGAGGAGGAAGATTTTGGTGAGGAGGCTGAAGAGGAGGCT

Alignment

ORF - retro_mputfur_1123 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.59 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MREIVHIQAGQCGNQIGAKFWEVISDEHGIDPTGTYHGDSDLQLDRISVYYNEATGGKYVPRAILVDLEP
          .REIVHIQA..CGNQI.AKFWEVI..EH.IDPTG.YH.DSDLQLD.IS...NEAT.GKYVPRAILVDLEP
Retrocopy VREIVHIQAS*CGNQISAKFWEVIGNEHSIDPTGSYHSDSDLQLDHISTFDNEATHGKYVPRAILVDLEP

Parental  GTMDSVRSGPFGQIFRPDNFVF-GQSGAGNNWAKGHYTEGAELVDSVLDVVRKEAESCDCLQGFQLTHSL
          GTMDSV.SGPFGQI.RPDNFVF.G.SGAGNNWAKGHYTEGAELVDSVLDVVRKEAESCDCLQGFQLTHSL
Retrocopy GTMDSVCSGPFGQILRPDNFVF>GHSGAGNNWAKGHYTEGAELVDSVLDVVRKEAESCDCLQGFQLTHSL

Parental  GGGTGSGMGTLLISKIREEYPDRIMNIFSVVPSPRVSDTVVEPYNATLSVHQLVENTDETYCIDNEALYD
          G.GTGSGMG.LLISKI.EEYP..IMN.FSVVPSP.VSDTVVEPYN.TLS.HQLVENTDE.YCIDNEALYD
Retrocopy GEGTGSGMGILLISKI*EEYPNHIMNTFSVVPSPKVSDTVVEPYNVTLSIHQLVENTDESYCIDNEALYD

Parental  ICFRTLKLTTPTYGDLNHLVSATMSGVTTCLRFPGQLNADLRKLAVNMVP-FPRLHFFMPGFAPLTSRGS
          ICF.TLKLT.PTYGD.NH.VSAT.SGVTTCL.FPGQL.ADL.K......P..P.LH...PGFAPLTS.GS
Retrocopy ICFCTLKLTIPTYGDQNHFVSATTSGVTTCLHFPGQLIADLQKQPSTCIPTAPLLH---PGFAPLTSCGS

Parental  QQYRALTVPELTQQVFDAKNMMAACDPRHGRYLTVAAVFRGR-MSMKEVDEQMLNVQ-NKNSSYFVEWIP
          QQY.ALT.PELTQQV.DAKN.MAACDP.HG.YLTVAAVF.G..MSMKEVDEQMLN.Q..KNSSYFV.WIP
Retrocopy QQYQALTMPELTQQVSDAKNKMAACDPCHGCYLTVAAVFMGE<MSMKEVDEQMLNMQ<KKNSSYFVKWIP

Parental  NNVKTAVCDIPPRGLKMAVTFIGNSTAIQELFKRISEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMN
          NNVK..VC.IPP.G.KMAVTFIGNSTAIQE.FK.ISEQF.AMF...AFL.WYTGEGMD.MEFTEA.SNMN
Retrocopy NNVKIGVCNIPPCGFKMAVTFIGNSTAIQEFFKCISEQFMAMFLYQAFLFWYTGEGMDKMEFTEAGSNMN

Parental  DLVSEYQQYQDATAEEEEDFGEEAEEEA
          DLVSEY.QYQDAT.EEEEDFGEEAEEEA
Retrocopy DLVSEYLQYQDATTEEEEDFGEEAEEEA

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_1123 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1123 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 7 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000006969	2 retrocopies	retro_btau_471, retro_btau_55,
Canis familiaris	ENSCAFG00000000443	1 retrocopy	retro_cfam_1860,
Macaca mulatta	ENSMMUG00000023684	2 retrocopies	retro_mmul_2501, retro_mmul_375,
Mustela putorius furo	ENSMPUG00000006958	1 retrocopy	retro_mputfur_1255,
Mustela putorius furo	ENSMPUG00000011690	3 retrocopies	retro_mputfur_1123 , retro_mputfur_607, retro_mputfur_807,
Nomascus leucogenys	ENSNLEG00000005348	1 retrocopy	retro_nleu_498,
Otolemur garnettii	ENSOGAG00000032213	1 retrocopy	retro_ogar_2391,