RetrogeneDB ID: retro_fcat_307

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A2:7439755..7440123(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000011738
• Aliases: None
• Description: None

Sequence

>retro_fcat_307
GAGCCGCAGCATGCAAAGTACAGGTATTACCGCTTGCACGGGGAATTCTGCGGGGGGCGGGGCGGGGCTGAGTGCCGGCA
AAAGGAAGTCTGGTGCGCGTTTGAAGCAGAGATGTAATGGACAAGAAACTACCAAGTCAATCGTGAACTTGACAACATCA
CCCACGAAAGGCTGACAGCCTGTCCCCAGAGGGAAGGCGAGAGCTACAGGCAGAATTGTCCAAGCAGCTGAAGCAGTGCA
TCCGGGTGGCCCAAGGCCTCCCAGGGCTCCAGGGCTACCTTGGGACCCATTATTCTGCCAGGAAGCGCCTGGCAAAGCAG
AAGCAGGGCATGCTGGCAAAGGGGAAAGCAGCTAATAAGGCCGCTGCC

Alignment

ORF - retro_fcat_307 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.45 %
• Parental protein coverage: 69.89 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ERQHAKNRYYYYHREFRRVPDITECQEKDVLCMFEAEMQWRRDYKVDQEIVNIIQERLKACQQREGESYR
          E.QHAK.RYY..H.EF.......EC..K.V.C.FEAEM.W.R.Y.V..E..NI..ERL.AC.QREGESYR
Retrocopy EPQHAKYRYYRLHGEFCGGRGGAECRQKEVWCAFEAEM*WTRNYQVNRELDNITHERLTACPQREGESYR

Parental  ENC-AKEMEQFAQVAKAYQDRYHDLGAHYSARKCLAKQKQRMLAERKAAKEAAA
          .NC..K...Q...VA.........LG.HYSARK.LAKQKQ.MLA..KAA..AAA
Retrocopy QNC<SKQLKQCIRVAQGLPGLQGYLGTHYSARKRLAKQKQGMLAKGKAANKAAA

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	25.82 RPM
SRP017611_kidney	0.00 RPM	69.98 RPM
SRP017611_liver	0.00 RPM	30.53 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_307 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_307 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 13 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000019476	1 retrocopy	retro_cfam_1861,
Echinops telfairi	ENSETEG00000017154	1 retrocopy	retro_etel_1955,
Felis catus	ENSFCAG00000011738	1 retrocopy	retro_fcat_307 ,
Homo sapiens	ENSG00000140990	2 retrocopies	retro_hsap_1573, retro_hsap_3801,
Gorilla gorilla	ENSGGOG00000009367	2 retrocopies	retro_ggor_1198, retro_ggor_2555,
Latimeria chalumnae	ENSLACG00000013152	1 retrocopy	retro_lcha_100,
Macaca mulatta	ENSMMUG00000029268	1 retrocopy	retro_mmul_2218,
Mus musculus	ENSMUSG00000040048	1 retrocopy	retro_mmus_2566,
Nomascus leucogenys	ENSNLEG00000008867	1 retrocopy	retro_nleu_1740,
Pongo abelii	ENSPPYG00000006974	2 retrocopies	retro_pabe_1297, retro_pabe_3106,
Pan troglodytes	ENSPTRG00000007618	2 retrocopies	retro_ptro_1060, retro_ptro_2578,
Rattus norvegicus	ENSRNOG00000014568	1 retrocopy	retro_rnor_1056,
Sus scrofa	ENSSSCG00000030328	1 retrocopy	retro_sscr_689,