RetrogeneDB ID: retro_fcat_1113

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: C1:104082407..104082716(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GPX4
• Ensembl ID: ENSFCAG00000022744
• Aliases: None
• Description: glutathione peroxidase 4 [Source:HGNC Symbol;Acc:4556]

Sequence

>retro_fcat_1113
GGTTTACGGATCCTGGCCTTCCCTTGCAACCAGTTTGGAGGCAGCAGCCAGGGAGCAATGCAGAGATCAGGCAGCTCTCT
GCTGATCATAATGTCACACTCGATATGTTCTGCAAGATATGTGTGAATGGGACAATGCTCACCTGCTGTGGAAGTGGATG
AAAGTCCAGCCCGAGGGGAGGGGCATCCTGGGAAATGCCATCAAACGGAACTTCACCAGGTTCCTCGCTGGCAAAAGGGC
TGTGTGCTGGAGCGGTATGGTCCCTTGGAAGAGCCCCTGGAAGCAGAGAAAGGCTTGCCCTGCTACCTC

Alignment

ORF - retro_fcat_1113 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.77 %
• Parental protein coverage: 92.86 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  GLRILAFPCNQFG-RQEPGSNAEIKEFAAGYNVKFDMFSKICVNG-DDAHPLWKWMKVQPKGRGILGNAI
          GLRILAFPCNQFG.RQ.PGSNAEI....A..NV..DMF.KICVNG.D.AH.LWKWMKVQP.GRGILGNAI
Retrocopy GLRILAFPCNQFG<RQQPGSNAEIRQLSADHNVTLDMFCKICVNG<DNAHLLWKWMKVQPEGRGILGNAI

Parental  KWNFTKFLIDK-NGCVVKRYGPMEEPLVIEKDLPCYL
          K.NFT.FL..K..GCV..RYGP.EEPL..EK.LPCYL
Retrocopy KRNFTRFLAGK<KGCVLERYGPLEEPLEAEKGLPCYL

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	48.89 RPM
SRP017611_kidney	0.00 RPM	103.06 RPM
SRP017611_liver	0.00 RPM	44.48 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1113 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1113 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.

---

Parental genes homology:

Parental genes homology involve 4 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000022744	1 retrocopy	retro_fcat_1113 ,
Monodelphis domestica	ENSMODG00000005486	1 retrocopy	retro_mdom_1363,
Mus musculus	ENSMUSG00000075706	2 retrocopies	retro_mmus_1595, retro_mmus_560,
Ochotona princeps	ENSOPRG00000008347	4 retrocopies	retro_opri_1144, retro_opri_63, retro_opri_705, retro_opri_929,