RetrogeneDB ID: retro_fcat_1651

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: E1:28592024..28593162(+)
• Located in intron of: ENSFCAG00000018470

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000022032
• Aliases: None
• Description: None

Sequence

>retro_fcat_1651
CTGTACACTCTTTTAGAACCTGGGGCAGATGCTAATGCCACTACTTCAGAGAAAACCACACCACTGTTTTTAGCTGTTGA
AAATGGACAGATAGATATATTAAAGCTGTTGCTTCGACATGGAGCAAATGTTAACGGGTCCCATTCTGGGTGTGGATGCA
ACGCTTTGCATCAGGCTACTTTTCAGGAAATGCTGAGATCATAAAATTGCTTTTTTAAGAAAGGAGCAAACAAGGAATGC
CAGGATGACTTTGGAATCACACTTTTATTTGTGGCTGCTTGGCACGGCAAGCTGGAAATCTTAAACATACTTATTTCATC
AGGTGCAAAAGTCAACTGTCAAACATTGGATGAAGTTACTCCCTCATTCATTGCTGCTCAGGAGGGCCACACAGAATGTG
TAGAGCTTTTGCTGTTCAGTGGGCCAGATCCTGATCTTTACTGTAATGAGGCCTATTGGCAGTTACCTATTCATGCAGTT
GCATGAATGGTCCATATTGGACCATTAATGGACTTCTTAATACCACTTACCAACTGGGTTTGTGACATGGGCCAGACAAA
GTGAGCCCCGTTTACTCTGCAGTGTTCGGAGGGCATGAAGAGTGACTAGAAATGTTATTCCAGCATGACTACAGACAAGA
TGTCTAGATGTGCCACATCTTTGCATTTAGTTCTCCCTGTGTATGGCTTTCCAAACGGACTGTGAGTTTTTGGAATTGTG
AATATTCTTTTGAAATATGGAGCCCAACTAAATGAACTTCATTTGGCATACTGCCTAACGTATGAGAAATTTTCAGTATT
TTGCTACTTTTTGAAGAAAGGTTGTCTATTGGCATTGTGGAACCATATTTCTGAATCTATAAATCATGCAATTAAAGCAT
AGACAAAATATAAGGAATGGCTACCATCTCTCCTGCTTGCTGGATTTGACCCACTGAATCTACTCTGCAATTCTTGGATT
GACTCAGTCAGTGATGACACCCTTATCTTCACTTTGGAGTTTACTAATTGGAGGAGGCTTCTTCCAGCTGTTGAAAAGAT
GCTCTCTGCTCGTGTCTCAAACTCCTCTTGGGCTCTGCAAGCAGCATATTGCCTCTGTTCTGTCCCTTACCCACCTTTGT
TGTTTAGAAATTCGTTCA

Alignment

ORF - retro_fcat_1651 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.66 %
• Parental protein coverage: 72.35 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  VHILLEAGADPNATTSEETTPLSFAAVENGHIDVLRLLLRYGANVNGSHSMCGWNALHQATFQE-NGEII
          ...LLE.GAD.NATTSE.TTPL.F.AVENG.ID.L.LLLR.GANVNGSHS.CG.NALHQATFQE.N.EII
Retrocopy LYTLLEPGADANATTSEKTTPL-FLAVENGQIDILKLLLRHGANVNGSHSGCGCNALHQATFQE<NAEII

Parental  KLLL-KKGADKECQDDFGITPLFVAAQYGKLESLSILISSGANVNCQALDEATPLFIAAQEGHTECVELL
          KLL..KKGA.KECQDDFGIT.LFVAA..GKLE.L.ILISSGA.VNCQ.LDE.TP.FIAAQEGHTECVELL
Retrocopy KLLF>KKGANKECQDDFGITLLFVAAWHGKLEILNILISSGAKVNCQTLDEVTPSFIAAQEGHTECVELL

Parental  LSSGADPDLYCNEDDWQLPIHAAAQMGHT-EILELLIPLTNRVCDT-GPDKVSPVYSAVFGGHEECLEML
          L.SG.DPDLYCNE..WQLPIHA.A.M.H.......LIPLTN.VCD..GPDKVSPVYSAVFGGHEE.LEML
Retrocopy LFSGPDPDLYCNEAYWQLPIHAVA*MVHIGPLMDFLIPLTNWVCDM<GPDKVSPVYSAVFGGHEE*LEML

Parental  LQHGYSPDAQMCLIFGFSSP-MCMAFQKDWSCEF-FGIVNILLKYGAQLNELHLAYCLKYEKFLVFRYFL
          .QH.Y..D..MC.IF.FSSP..CMAFQ.D..CEF.FGIVNILLKYGAQLNELHLAYCL.YEKF.VF.YFL
Retrocopy FQHDYRQDV*MCHIFAFSSP<LCMAFQTD--CEF<FGIVNILLKYGAQLNELHLAYCLTYEKFSVFCYFL

Parental  KKGCPLAPWNHISEFISHAIKAQTTYKEWLPSLLLAGFDPLNLLCSSWIDSVSDDILIFTLEFTNWRTLP
          KKGC.LA.WNHISE.I.HAIKA.T.YKEWLPSLLLAGFDPLNLLC.SWIDSVSDD.LIFTLEFTNWR.L.
Retrocopy KKGCLLALWNHISESINHAIKA*TKYKEWLPSLLLAGFDPLNLLCNSWIDSVSDDTLIFTLEFTNWRRLL

Parental  PAVEKMISTRASHSSRALQ-QHIACLPSLTHLCRLEIRS
          PAVEKM.S.R.S.SS.ALQ.QHIA...SLTHLC.LEIRS
Retrocopy PAVEKMLSARVSNSSWALQ>QHIASVLSLTHLCCLEIRS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP017611_brain	0.11 RPM	29.04 RPM
SRP017611_kidney	0.10 RPM	19.99 RPM
SRP017611_liver	0.10 RPM	17.89 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1651 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1651 was not experimentally validated.

Homology

Retrocopy orthology:

Felis catus 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000022032	1 retrocopy	retro_fcat_1651 ,