RetrogeneDB ID: retro_fcat_111

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A3:11765767..11766340(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000026203
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000010737
• Aliases: IFNL1, IL29
• Description: None

Sequence

>retro_fcat_111
ATGGCTCCAGCTTGGGTTGTGGTGCTGGTGACCGCGGTGCTGGGCTTGACCAGCGCGGGTCCTGTCCCCACTTCCAGGCC
CCCCCCAACCAGGAGGGGCTGCCACGTGGGCAAGTTCCCATCTCTGTCGCCGAGGGAGCTAGAAGCCTTCAAGAAGGCCA
GGGACGCCTTAGAAGAGTCACTCCCGCTGAAGAACTGGAGCTGTGGCTCTCGCCTCTTCCCCAGGACCAGGGACCTGATT
CGACTGCAGGCCTGGGAGCGCCCTGCGGCCTTGGAGGCTGAACTAGACTTGACGCTGAAGGTCCTGGGGAACATGACCGA
CTCATCCCTGGGCGTCGTCCTGGACCAGCCCCTTCGTGTGCTGCGCCACATCCACTCCGAGCTCCAGGCCTGTGTCCGGG
CTCAGCCCACGGCAGGACCCAGACCCCGCGGCCGCCTGCACCACTGGCTGCACCGGCTCCAGAGGGCCCCAGAGGAGTCC
CAGGGATGCCTCGAGGCCTCCGTCACGTTCAACCTCTTCCGCCTCCTCACGCGGGACCTGAAGTGTGTCACCGGTGGAGA
CCTGTGCGTCTGA

Alignment

ORF - retro_fcat_111 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.25 %
• Parental protein coverage: 97.93 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAAAWVLVLVAAGLSLASAGPVPTSKPTTAWTDCDFGRFKSLSPRELEAFKEARDALENSL--KSWSCTT
          MA.AWV.VLV.A.L.L.SAGPVPTS.P......C..G.F.SLSPRELEAFK.ARDALE.SL..K.WSC..
Retrocopy MAPAWVVVLVTAVLGLTSAGPVPTSRPPPTRRGCHVGKFPSLSPRELEAFKKARDALEESLPLKNWSCGS

Parental  RPFPRNRDLRQLQVWERPVALEAELALTLKVLGTMADASQGDILDQPLHTLRHMHSELQACVSAQPTAGP
          R.FPR.RDL..LQ.WERP.ALEAEL.LTLKVLG.M.D.S.G..LDQPL..LRH.HSELQACV.AQPTAGP
Retrocopy RLFPRTRDLIRLQAWERPAALEAELDLTLKVLGNMTDSSLGVVLDQPLRVLRHIHSELQACVRAQPTAGP

Parental  QPQGRLHHWLHRLQEASRKESQGCLEASVLFNLFRLLKKDLECVASGDLCV
          .P.GRLHHWLHRLQ.A...ESQGCLEASV.FNLFRLL..DL.CV..GDLCV
Retrocopy RPRGRLHHWLHRLQRAP-EESQGCLEASVTFNLFRLLTRDLKCVTGGDLCV

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	0.00 RPM
SRP017611_kidney	0.00 RPM	0.00 RPM
SRP017611_liver	0.00 RPM	0.00 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_111 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_111 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008614	1 retrocopy	retro_amel_68,
Canis familiaris	ENSCAFG00000005582	1 retrocopy	retro_cfam_58,
Equus caballus	ENSECAG00000005085	1 retrocopy	retro_ecab_56,
Felis catus	ENSFCAG00000010737	1 retrocopy	retro_fcat_111 ,
Monodelphis domestica	ENSMODG00000023790	1 retrocopy	retro_mdom_1793,
Mustela putorius furo	ENSMPUG00000017733	1 retrocopy	retro_mputfur_164,