RetrogeneDB ID: retro_fcat_1783

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: F1:31967557..31968086(-)
• Located in intron of: ENSFCAG00000011035

Retrocopy information

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

Parental gene information

• Parental gene symbol: C16orf13
• Ensembl ID: ENSFCAG00000024937
• Aliases: None
• Description: chromosome 16 open reading frame 13 [Source:HGNC Symbol;Acc:14141]

Sequence

>retro_fcat_1783
GGTGTCCATGGGCACAAGGTGGCCTCGGGCCCTGACCAGCTCAGGGTCCACTTCGCGCAGGCCTCCCCCCCGCCCCCACA
CCGAATGGCAGCCATGGACCAGCGCTGCCTGGACAGCAGAATCTCTGCCACCACTCAGGCTCAGGGCCATCCCACGTGCT
GGCCCTGCTATACCTGGACATGAGCCGGGATTGGGAGCAATGGGGTGGGATCCTGCCACGGTCACTGGACCTGCTGCTTG
GCATCAGTGTGATCCACATCAGCCCCCCGAACTGCACCAAGGGGCTCTTCAGAGCAGCAGGGCACCTGCTGAAACCCATG
GTGCCGCTGATCACCTACTGGCCCTATGAAACCAACGGCAAGATCACTCCACAAAGTAACGAAGATTCTGAACTAGCCCT
TAGATGCAGGAGCCTGGAGTAGGGACTTCAGACACGGTCCTCCCAGAGGACCTGGGCCAAGCCAGTGGCCTGCTCCTGGA
GAAGACGGTGGACATGCCAGCTAGCAAGTGCCTGAGATTCCGGAAGGAG

Alignment

ORF - retro_fcat_1783 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.22 %
• Parental protein coverage: 86.76 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GVRVLEVASGSGQHTAHFARAFPHAEWQPSDVDQRCLDS-ISATTQAQGL-SNVKAPLYLDVTWDWEHWG
          GV....VASG..Q...HFA.A...........DQRCLDS.ISATTQAQG..S.V.A.LYLD...DWE.WG
Retrocopy GVHGHKVASGPDQLRVHFAQAXXXXXHRMAAMDQRCLDSRISATTQAQGH<SHVLALLYLDMSRDWEQWG

Parental  GILPQSLDLLLCINMIHISPLNCTEGLFRAAGHLLKPKALLITYGPYAINGKITPQSNVDFDLTLRCRNP
          GILP.SLDLLL.I..IHISP.NCT.GLFRAAGHLLKP...LITY.PY..NGKITPQSN.D..L.LRCR..
Retrocopy GILPRSLDLLLGISVIHISPPNCTKGLFRAAGHLLKPMVPLITYWPYETNGKITPQSNEDSELALRCRSL

Parental  EWGLR-DTALLEDLGQASGLLLERMVDMPANNKCLIFRKE
          E.GL..DT.L.EDLGQASGLLLE..VDMPA..KCL.FRKE
Retrocopy E*GLQ<DTVLPEDLGQASGLLLEKTVDMPA-SKCLRFRKE

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	16.76 RPM
SRP017611_kidney	0.00 RPM	17.93 RPM
SRP017611_liver	0.00 RPM	7.99 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1783 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1783 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000019655	1 retrocopy	retro_cfam_1834,
Felis catus	ENSFCAG00000024937	1 retrocopy	retro_fcat_1783 ,
Tursiops truncatus	ENSTTRG00000009231	1 retrocopy	retro_ttru_184,