RetrogeneDB ID: retro_fcat_489

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A3:85067552..85068028(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000028183
• Aliases: None
• Description: None

Sequence

>retro_fcat_489
GAGAGTCCCCGTTCTGATGAACGTGGAGACCTTCTGCAGTGCAGAGCCTAAGGCAGTGTGCTTTTTAACACCATGATCAA
GCCTTTTTAAAAGTCTGTTGTCTTCATCCTCCTCCTCACACATCAGTGGGAAAAGGTGGCCCTACTGAGTCCCCTGAAAA
CTCAGACCTGAAACTGGCCATCATCATGCTGATCATCCCCTTCCTCGTCAATGCTTTGATGTTTTGGATAGTGAACAACT
TCAGGAGAAAGGGGAGGCCGAAAGCTAAACTAGAAGAAAGGGGAGCCAATCAGGACTCAAGGGAGGAGAGCAAGGTCCAC
TGCAGGAGGGCTGAGTCCCACGTACAAGGAGTCGGAATCTGCGATCCTGATCTCAACGGATGACAAGATGGAGGTGCGCA
ACGTGGAGGGGCACCTGCGCAGACCAATGCCCTGAAGGCTGCCGAGAAAAAGGAGCACCGCTTACTGTTGCCAGTA

Alignment

ORF - retro_fcat_489 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.15 %
• Parental protein coverage: 53.51 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  ESLRFGEYGDPLQCGAWVGQCALYIVIMIFEKSVVFIVLLILQWKKVALLNPI-ENPDLKLAIVMLIVPF
          ES.R..E.GD.LQC.A..G.......I..F.KSVVFI.LL..QW.KVALL.P..EN.DLKLAI.MLI.PF
Retrocopy ESPRSDERGDLLQCRA*-GSVLFNTMIKPF*KSVVFILLLTHQWEKVALLSPL<ENSDLKLAIIMLIIPF

Parental  FVNALMFWVVDNFLMRKGRTKAKLEERGANQDSRNGSKVRYRRAASHEE-SESEILISADDE-MEESDVE
          .VNALMFW.V.NF..RKGR.KAKLEERGANQDSR..SKV..RRA.SH.............D..ME...VE
Retrocopy LVNALMFWIVNNF-RRKGRPKAKLEERGANQDSREESKVHCRRAESHVQ>ESESAILISTDDKMEVRNVE

Parental  EDLRRLTP-LKPAKKKKHRFGLPV
          ..LRR..P.LK.A.KK.HR..LPV
Retrocopy GHLRRPMP<LKAAEKKEHRLLLPV

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	0.00 RPM	19.63 RPM
SRP017611_kidney	0.00 RPM	17.83 RPM
SRP017611_liver	0.00 RPM	23.25 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_489 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_489 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	ENSFCAG00000028183	1 retrocopy	retro_fcat_489 ,