RetrogeneDB ID: retro_mputfur_1641

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL897596.1:14232..14966(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TSPAN3
• Ensembl ID: ENSMPUG00000017332
• Aliases: None
• Description: tetraspanin 3 [Source:HGNC Symbol;Acc:17752]

Sequence

>retro_mputfur_1641
GGCCAATGCAGCATCACTCCTCCAAGACTCTGCTGGTGTTTCCCAACCTTATCTTCTGGGGGGCAGGTGGCATTTTATGC
TATGTGGGAGCCTATATCTTTATCACTTATTATGACTGTGACCATTTCTTTGAAAATGTGTATACTCTCTTGTCCGTGGT
AGTGATCATAGCTTTAAGAGCCCTGCTCTTCATTATGGACCTAACTGGCTGCTGTGCCACAATCCGAGAAAGCCACTGTG
GACTTGCCATGTTTGTCATCATCCTATGCTTGCTTTTTGTCAGATAAGTTGCTGTGGTGGTTTTGGGATATGCTTACAGA
GCAAAGGTGGAAAGTGAGGTTGATCGCAGCATTCAGAAAGTGTGTAAGACCTACAATGAACCGAACCTGATGCTGCTAGC
CAGGCTCTTGATTATGTACAGAGACAGCTTCACTGTTGTGGAATTCACATCTAGTCAGGCTGGGAAAACACAGACTGGTT
CAAAGAGACCAAAAACCAGAGTGTCCTTCGTAGCTGCAGCGGAGAGGCTCAGCAGCTGTAATGACAGTCTGGCCCACCCC
TCTGACCTCTGTGCTAAGGGATGTGGGGCTCTAGTTGTGAAGAGGTTACTAGAAGTCATGATGCCTATTATCTGGGCAGC
CCTGGCATTTGCAGCTATTCAGCTGCTGGGCATGTTGTGTGCCTGCATCATATTGTGCAGGAGTAGAGATCCTGCTTGTG
AGCTTCTCCTCACC

Alignment

ORF - retro_mputfur_1641 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.0 %
• Parental protein coverage: 97.63 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  GQCGIT-SSKTVLVFLNLIFWGAAGILCYVGAYVFITYDDYDHFFEDVYTLIPAVVIIAVGALLFIIGLI
          GQC.IT.SSKT.LVF.NLIFWGA.GILCYVGAY.FITY.D.DHFFE.VYTL...VVIIA..ALLFI..L.
Retrocopy GQCSIT<SSKTLLVFPNLIFWGAGGILCYVGAYIFITYYDCDHFFENVYTLLSVVVIIALRALLFIMDLT

Parental  GCCATIRESRCGLATFVIILLLVFVTEVVVVVLGYVYRAKVENEVDRSIQKVYKTYNGTN-PDAASRAID
          GCCATIRES.CGLA.FVIIL.L.FV..V.VVVLGY.YRAKVE.EVDRSIQKV.KTYN..N.PDAAS.A.D
Retrocopy GCCATIRESHCGLAMFVIILCLLFVR*VAVVVLGYAYRAKVESEVDRSIQKVCKTYNEPN<PDAASQALD

Parental  YVQRQLHCCGIHNYSDWENTDWFKETKNQSVPLSCCR-ETASSCNGSLAHPSDLYAEGCEALVVKKLQEI
          YVQRQLHCCGIH..S.WENTDWFKETKNQSV.L..C..E..SSCN.SLAHPSDL.A.GC.ALVVK.L.E.
Retrocopy YVQRQLHCCGIHI*SGWENTDWFKETKNQSV-LRSCS>ERLSSCNDSLAHPSDLCAKGCGALVVKRLLEV

Parental  MMHVIWAALAFAAIQLLGMLCACIVLCRRSRDPAYELLIT
          MM..IWAALAFAAIQLLGMLCACI.LC.RSRDPA.ELL.T
Retrocopy MMPIIWAALAFAAIQLLGMLCACIILC-RSRDPACELLLT

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_1641 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_1641 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 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000009727	1 retrocopy	retro_amel_1275,
Bos taurus	ENSBTAG00000002415	2 retrocopies	retro_btau_1089, retro_btau_1650,
Canis familiaris	ENSCAFG00000018068	2 retrocopies	retro_cfam_1391, retro_cfam_571,
Choloepus hoffmanni	ENSCHOG00000003785	2 retrocopies	retro_chof_162, retro_chof_1682,
Dasypus novemcinctus	ENSDNOG00000005619	3 retrocopies	retro_dnov_1371, retro_dnov_1520, retro_dnov_1616,
Echinops telfairi	ENSETEG00000010916	1 retrocopy	retro_etel_872,
Felis catus	ENSFCAG00000025746	1 retrocopy	retro_fcat_1860,
Mustela putorius furo	ENSMPUG00000017332	2 retrocopies	retro_mputfur_1641 , retro_mputfur_1651,
Pteropus vampyrus	ENSPVAG00000004662	1 retrocopy	retro_pvam_394,
Ictidomys tridecemlineatus	ENSSTOG00000005615	1 retrocopy	retro_itri_1268,