RetrogeneDB ID: retro_mputfur_484

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896913.1:5440127..5440904(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SC5D
• Ensembl ID: ENSMPUG00000005754
• Aliases: None
• Description: sterol-C5-desaturase [Source:HGNC Symbol;Acc:10547]

Sequence

>retro_mputfur_484
GATCTTGTGCTCAGTTTTGCAGATTTTTTTTTTTTTAACACCATACATTTATCTGGTTTCATGGTCTGAGGGTGACCTCT
TCCGATAAACTATTAGTCTCCAAATTGTAACAAATCCTGGTGTTTATATACTTTATTTCACTTTGCAACACTGAGCTATT
ATTTTATCTTTTACCATTCATTAGTGACACATCCATAACTTTTAAAGAATTAAGTCTATAGAGAGATTACATTTGCTGTC
CAATTATTGCCATAGATTAATATTCCTACTGTTTCATTACTTCTGCTAGAGTTGAGAGATTACAGCAAACTATATGATGA
CCTAGGAGAGTTTCCAAGTGGCTGGTTTCAGCTCATTATTAGTATACTTTCTTTCCTCTTTTTCACTGATATCCTTATCT
ACTGGATTCACAGAGGCCTTCATCATAGACTTGTGTAGAAACACATATATAAACCTCATCATCTCTGGAAGTTCCAAACT
CCATTTGCAAATCATGCTTTTCGTTCTTTGGAGGGCTTCCTTCAGAATCTACCCTGCCATATATACCCTTTTATCTTTCC
GTTACACAAGGTAGTATATTTAAGTTTGTACATCTTGATCAATATCTGGACAATTACCATTCAGATGGCAATTTCCATGT
TCCCCAAATCTGAAGGCCATTTATTAACGGCTCAGCCCATCATATAGACCACCAAATAATTCTTTGACTACAACTATGAA
TAGTATTTCACCTTGAGGGAGAGAATTAGAGGCTTGTTTAAAAATCCTTCCTCCTTT

Alignment

ORF - retro_mputfur_484 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.38 %
• Parental protein coverage: 86.62 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  DLVLNAADYYFF-TPYIYPASWPEDNIFRQTISLLIVTNLGAYILYF-FFATLSYYFVYDHALMKHPQFL
          DLVL..A......TPYIY..SW.E...FR.TISL.IVTN.G.YILYF..FATLSYYF...H.L..HP..L
Retrocopy DLVLSFAXXXXX>TPYIYLVSWSEGDLFR*TISLQIVTNPGVYILYF<HFATLSYYFIFYHSLVTHP*LL

Parental  KNQVYREIIFTVQSLPWISIPTVSLFLLELRGYSKLYDDIGEFPSGWFRLIVSVLSFLFFTDMLIYWIHR
          KN.VYREI.F.VQ.LP.I.IPTVSL.LLELR.YSKLYDD.GEFPSGWF.LI.S.LSFLFFTD.LIYWIHR
Retrocopy KN*VYREITFAVQLLP*INIPTVSLLLLELRDYSKLYDDLGEFPSGWFQLIISILSFLFFTDILIYWIHR

Parental  GLHHRLVYKRIHKPHHLWKIPTPFASHAFHPVDGFLQSLPYHIYPFIFPLHKVVYLSLYILVNIWTISIH
          GLHHRLV.K.I.KPHHLWK..TPFA.HAF....GFLQ.LP.HIYPFIFPLHKVVYLSLYIL.NIWTI.I.
Retrocopy GLHHRLV*KHIYKPHHLWKFQTPFANHAFRSLEGFLQNLPCHIYPFIFPLHKVVYLSLYILINIWTITIQ

Parental  -DGDFRVPQILRPFINGSAHHTDHHM-FFDYNYGQYFTLWDRIGGSFKNPSSF
          .DG.F.VPQI.RPFINGSAHH.DH...FFDYNY..YFTL..RI.G.FKNPSSF
Retrocopy <DGNFHVPQI*RPFINGSAHHIDHQI>FFDYNYE*YFTLRERIRGLFKNPSSF

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_484 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_484 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 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000019246	1 retrocopy	retro_btau_813,
Canis familiaris	ENSCAFG00000011805	1 retrocopy	retro_cfam_291,
Callithrix jacchus	ENSCJAG00000007436	1 retrocopy	retro_cjac_1911,
Monodelphis domestica	ENSMODG00000013028	1 retrocopy	retro_mdom_1086,
Mustela putorius furo	ENSMPUG00000005754	1 retrocopy	retro_mputfur_484 ,
Ochotona princeps	ENSOPRG00000003219	1 retrocopy	retro_opri_1143,
Ictidomys tridecemlineatus	ENSSTOG00000008946	1 retrocopy	retro_itri_964,
Tupaia belangeri	ENSTBEG00000000490	1 retrocopy	retro_tbel_4326,
Tarsius syrichta	ENSTSYG00000011139	1 retrocopy	retro_tsyr_1097,
Tursiops truncatus	ENSTTRG00000006908	1 retrocopy	retro_ttru_777,