RetrogeneDB ID: retro_fcat_864

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B3:119462186..119462703(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PNO1
• Ensembl ID: ENSFCAG00000025330
• Aliases: None
• Description: partner of NOB1 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:32790]

Sequence

>retro_fcat_864
ATAGAAACGGAGATGGAGGCCCAGAGTGCAGGGGCCAAGAACGGCTTCACCCAAGTCACCCATGAGGTGGCTGGCGGACA
AAGAAACCAGGCTGAGCAGCTGTCCGAGTGGGGGGAGGGCAGGGACATGGCCCACAGGGACACAGAGGAGGCCCGGCCCA
CAAAGAGGCCCATTTTCCCACCCCTCGCCAGGGACGGATTCCTGAGTGGAAAAGAAGAAAACAAGGAAAATTCCGGTCCC
GGCTAACAGATACACGCCATTGAAAGAAAACTGGATGAAGATATTTACTCCTATTGTAGAATGTTTGGCACTCCAGATGC
ACTTTAACTTAAAATCGAGGAACGTAGAGATCAGGACTTGTAAAGAAACCAAAGATGTTAGTGCTCTGACAAAAGCAGCT
GGTTTTGTGAAAGCCTTTATTCTTGGGTTTCAGGTAGAGGATGCCCTTGCCCTCATTAGGTTGGATGACCTCTTCCTAGA
GTCCTTTGAAATCACAGATGTGAAGCCCCTAAAGGGG

Alignment

ORF - retro_fcat_864 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.52 %
• Parental protein coverage: 68.65 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  METEMEAQSAGAEDGFTQVTRK--GGRRAKKRQAEQLSAAGEGGDAARMDTEEARPAKRPVFPPLAGDGF
          .ETEMEAQSAGA..GFTQVT....GG.R....QAEQLS..GEG.D.A..DTEEARP.KRP.FPPLA.DGF
Retrocopy IETEMEAQSAGAKNGFTQVTHEVAGGQR---NQAEQLSEWGEGRDMAHRDTEEARPTKRPIFPPLARDGF

Parental  LSGKEE-TRKIPVPANRYTPLKENWMKIFTPVVEHLGLQIRFNLKSRNVEIRTCKETKDVSALTKAADFV
          LSGKEE.TRKIPVPANRYTPLKENWMKIFTP.VE.L.LQ..FNLKSRNVEIRTCKETKDVSALTKAA.FV
Retrocopy LSGKEE>TRKIPVPANRYTPLKENWMKIFTPIVECLALQMHFNLKSRNVEIRTCKETKDVSALTKAAGFV

Parental  KAFILGFQVEDAVALIRLDDLFLESFEITDVKPLKG
          KAFILGFQVEDA.ALIRLDDLFLESFEITDVKPLKG
Retrocopy KAFILGFQVEDALALIRLDDLFLESFEITDVKPLKG

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	10.56 RPM
SRP017611_kidney	0.00 RPM	12.26 RPM
SRP017611_liver	0.10 RPM	5.05 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_864 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_864 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 14 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003256	1 retrocopy	retro_cfam_1886,
Callithrix jacchus	ENSCJAG00000006564	3 retrocopies	retro_cjac_2615, retro_cjac_273, retro_cjac_4127,
Felis catus	ENSFCAG00000025330	2 retrocopies	retro_fcat_1521, retro_fcat_864 ,
Loxodonta africana	ENSLAFG00000000046	1 retrocopy	retro_lafr_419,
Microcebus murinus	ENSMICG00000010897	1 retrocopy	retro_mmur_516,
Myotis lucifugus	ENSMLUG00000010850	1 retrocopy	retro_mluc_1719,
Macaca mulatta	ENSMMUG00000017461	2 retrocopies	retro_mmul_102, retro_mmul_352,
Nomascus leucogenys	ENSNLEG00000009993	1 retrocopy	retro_nleu_2389,
Oryctolagus cuniculus	ENSOCUG00000006100	1 retrocopy	retro_ocun_47,
Otolemur garnettii	ENSOGAG00000016637	1 retrocopy	retro_ogar_3025,
Pongo abelii	ENSPPYG00000012353	1 retrocopy	retro_pabe_1232,
Rattus norvegicus	ENSRNOG00000005524	1 retrocopy	retro_rnor_712,
Sus scrofa	ENSSSCG00000008352	2 retrocopies	retro_sscr_114, retro_sscr_352,
Tarsius syrichta	ENSTSYG00000004007	1 retrocopy	retro_tsyr_1625,