RetrogeneDB ID: retro_mputfur_473

Retrocopy location

• Organism: Ferret (Mustela putorius furo)
• Coordinates: GL896911.1:13920267..13921779(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PCDHA3
• Ensembl ID: ENSMPUG00000008368
• Aliases: None
• Description: protocadherin alpha 3 [Source:HGNC Symbol;Acc:8669]

Sequence

>retro_mputfur_473
GAGAGGTACCAAATTTGTAGTGGTTTTGCGATGCTGTTTCCCAGGCAAGAAGGCAAGGGAACCCTGCATTTGCTGCTCTG
CGTTCTGCTCCTCGCAGCCTGGAAGACTGGGAGTGGTCAGGTCCACTATTCGGTCCCGGAGGAGGCCAAACACGGCACCT
TCGTGGGCCGCATAGCCCAGGATTTGGGGCTGGAGCTGGCAGAGCTGGTGCCACGCCTGTTCCGGGTGGCGTCCAAAGGC
CACGGGGACTTTCTGGAGGTAAATCTGCAGAATGGCATTTTGTTTGTGAATTCTCGGATCGACCGGGAAGAGCTGTGCGG
GCAGAATCTGGAGTGCAGCATCCACCTGGAGGTGATCGTGGATAAGCCGCTGCAGGTTTTCCATGTGGAGGTGGAGGTGA
AGGACATTAATGATAACCCACCGGTTTTCAGAGCAAGAGAACAAAGGTTTTTTATTCCTGAATCTAGACTGGTGGATTCA
CGTTTCCCGATAGAGGGCGCTGCTGATGAAGACATTGGTACCAACGCTCTTCTAACATACACCCTCAGCCCCAGTGATTA
TTTCTCTTTGGATGTACAGGCAAGTGATGAACTCAGTAAGTCACTTTCACTTGAATTGAGGAAGTCTTTGGATAGAGAAG
AAACACCAGAACTTCATTTATTATTGACAGCCACTGATGGGGGCAAGCCAGAGCTTGAAGGTACAGTTCAGCTGCTGATC
ACAGTGCTGGATGTTAATGATAATGCCCCATTGTTTGCCCAGGCTGGGTACAGAGTCCATTTATTAGAGAGTACAGCAAA
TGGAACATTAGTGACTACATTAAATGCCTCTGATGCCGATGAAGGTGTAAATGGCGAAATTGTTTTTTCCTTTGGCAGTG
ATGTTCCTCTAAACATTCAAAAAAACTTCAAAATTGATTCCAGCTCAGGAGAAATTAGACTAATTGGTAGACTGGATTAT
GAAGAAACGAAATCCTATGAAATTCAGGTAAAAGCAGTTGATAAAGGAAATCCTCCAATGTCGAATCACTGCAAAGTTTT
AGTGAAAGTGCTGGATGTAAATGACAATGCTCCACAACTGGCAATCACACCTCTGTCTTTGCCGGTCAGAGAGGACTCTC
CACTAGGCACCGTCATCGCCTTTGTCTCCGTGTCCGACCGTGACTCTGGTGTCTATGGGCAGGTGACCTGCTCTGTGATG
CCTCCTATCCCATTCAAGCTGGTGTCCACCTTCAAAAACTACTATTCGCTGGTGCTGGACAGCGCCTTGGACCGCGAGAG
CGTGTCCAACTATGAGCTGGTGGTGACCGCAAGGGACGGGGGATCGCCTTCGCTCTCCGCCACGGCCAGCATGTCCGTGG
AAATGGCGGACGTGAACGACAACGCGCCGGCGTTCGCGCAGCCCGAGTACACGGTGTTCGTGAAGGAGAACAACCCGCCC
GGCTGCCACATCTTCACGGTGTCGGCGCGGGACGCGGACGCGCAGGAGAACGCGCGGGTGTCCTACTCGCTG

Alignment

ORF - retro_mputfur_473 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.95 %
• Parental protein coverage: 63.09 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ERRNIWERLATVFSWREEGSGARQLLLSLLLLTIWETGSGQVHYSVLEEAKHGTFVGRIAQDLGLELAEL
          ER..I....A..F..R.EG.G...LLL..LLL..W.TGSGQVHYSV.EEAKHGTFVGRIAQDLGLELAEL
Retrocopy ERYQICSGFAMLFP-RQEGKGTLHLLLCVLLLAAWKTGSGQVHYSVPEEAKHGTFVGRIAQDLGLELAEL

Parental  VPRLFRVASKGHGDLLEVNLQNGILFVNSRIDREELCGRSLECSIHLEVIVDRPLQVFHVEVEVKDINDN
          VPRLFRVASKGHGD.LEVNLQNGILFVNSRIDREELCG..LECSIHLEVIVD.PLQVFHVEVEVKDINDN
Retrocopy VPRLFRVASKGHGDFLEVNLQNGILFVNSRIDREELCGQNLECSIHLEVIVDKPLQVFHVEVEVKDINDN

Parental  QPVFPTAVKKLFIYESRLPGSRIPLEGASDADIGANSLLTYSLNSNDYFTLDIKRNDANIKSLGLVLKKV
          .PVF.......FI.ESRL..SR.P.EGA.D.DIG.N.LLTY.L...DYF.LD....D...KSL.L.L.K.
Retrocopy PPVFRAREQRFFIPESRLVDSRFPIEGAADEDIGTNALLTYTLSPSDYFSLDVQASDELSKSLSLELRKS

Parental  LNREDTPEHHLLITAVDGGKPELTGTTQVKITILDVNDNAPEFERSVYKVSLFENAPNGTLAVIVNASDL
          L.RE.TPE.HLL.TA.DGGKPEL.GT.Q..IT.LDVNDNAP.F....Y.V.L.E...NGTL....NASD.
Retrocopy LDREETPELHLLLTATDGGKPELEGTVQLLITVLDVNDNAPLFAQAGYRVHLLESTANGTLVTTLNASDA

Parental  DEGVNKDIVYSFNTDMSADTLSKFHLDPVSGYISVKGNIDFEDTKLYEIQVDATDKGNPPMAGHCTVLVE
          DEGVN..IV.SF..D........F..D..SG.I...G..D.E.TK.YEIQV.A.DKGNPPM..HC.VLV.
Retrocopy DEGVNGEIVFSFGSDVPLNIQKNFKIDSSSGEIRLIGRLDYEETKSYEIQVKAVDKGNPPMSNHCKVLVK

Parental  ILDVNDNVPELVIKSLSLPVLEDTPLGTVLALISVSDRDSGANGQLTCTLSPHVPFKLVSTFKNYYSLVL
          .LDVNDN.P.L.I..LSLPV.ED.PLGTV.A..SVSDRDSG..GQ.TC...P..PFKLVSTFKNYYSLVL
Retrocopy VLDVNDNAPQLAITPLSLPVREDSPLGTVIAFVSVSDRDSGVYGQVTCSVMPPIPFKLVSTFKNYYSLVL

Parental  DSALDRESVSNYELVVTARDGGSPSLSATASMSVEVADVNDNAPAFAQPEYTVFVKENNPPGCHIFKTKG
          DSALDRESVSNYELVVTARDGGSPSLSATASMSVE.ADVNDNAPAFAQPEYTVFVKENNPPGCHIF.T..
Retrocopy DSALDRESVSNYELVVTARDGGSPSLSATASMSVEMADVNDNAPAFAQPEYTVFVKENNPPGCHIF-TVS

Parental  ASDADIRANAMLTYTL
          A.DAD...NA...Y.L
Retrocopy ARDADAQENARVSYSL

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_473 retrocopy.

TSS

Mustela putorius furo was not studied using FANTOM5 data.

Lab

retro_mputfur_473 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 3 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Mustela putorius furo	ENSMPUG00000008368	2 retrocopies	retro_mputfur_472, retro_mputfur_473 ,
Tarsius syrichta	ENSTSYG00000004901	2 retrocopies	retro_tsyr_692, retro_tsyr_867,
Xenopus tropicalis	ENSXETG00000032691	1 retrocopy	retro_xtro_64,