RetrogeneDB ID: retro_fcat_113

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D1:89960911..89961484(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000013842
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000000133
• Aliases: None
• Description: None

Sequence

>retro_fcat_113
ATGGCGGAGAAGGCTCAAAAGAGTGTGAAGATTGCTCCTGGAGCAGTTGTATGTGTAGAAAGTGAAATCCGGGGTGATGT
AACCATAGGACCTAGGACAGTGATCCACCCTAAAGCACGGATTATTGCGGAAGCCGAGCCAATAGTGATTGGGGAAGGTA
ACCTAATAGAAGAACAGGCGCTTATCATAAATGCTCACCCTGATAATATCACCCCTGATGCTGAAGATCCAGAACCAAAA
CCTATGATCATTGGCACCAATAATGTGTTTGAAGTTGGCTGTTATTCCCAAGCCATGAAAATGGGAGATAATAATGTTAT
TGAATCAAAAGCATATGTGGGCAGAAATGTAATCCTGACAAGTGGTTGCATCATTGGGGCTTGCTGTAACCTGAATACAT
TTGAGGTCATCCCTGAGAATACAGTGATCTATGGTGCAGACTGCCTTCGTAGGGTGCAGACTGAGCGACCACAGCCCCAG
ACACTACAGCTGGATTTCCTGATGAAAATCTTGCCAAACTACCACCACCTAAAGAAGACTATGAAAGGAAGCTCAACTCC
AGTTAAGAACTAA

Alignment

ORF - retro_fcat_113 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.76 %
• Parental protein coverage: 96.35 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SVKIAPGAVVCVESEIRGDVTIGPRTVIHPKARIIAEAGPIVIGEGNLIEEQALIINAHPDNITPDAEDP
          SVKIAPGAVVCVESEIRGDVTIGPRTVIHPKARIIAEA.PIVIGEGNLIEEQALIINAHPDNITPDAEDP
Retrocopy SVKIAPGAVVCVESEIRGDVTIGPRTVIHPKARIIAEAEPIVIGEGNLIEEQALIINAHPDNITPDAEDP

Parental  EPKPMIIGTNNVFEVGCYSQAMKMGDNNVIESKAYVGRNVILTSGCIIGACCNLNTFEVIPENTVIYGAD
          EPKPMIIGTNNVFEVGCYSQAMKMGDNNVIESKAYVGRNVILTSGCIIGACCNLNTFEVIPENTVIYGAD
Retrocopy EPKPMIIGTNNVFEVGCYSQAMKMGDNNVIESKAYVGRNVILTSGCIIGACCNLNTFEVIPENTVIYGAD

Parental  CLRRVVSEEQRVQPQTLQLDFLMKILPNYHHLKKTMKGSSTPVKN
          CLRRV..E..R.QPQTLQLDFLMKILPNYHHLKKTMKGSSTPVKN
Retrocopy CLRRVQTE--RPQPQTLQLDFLMKILPNYHHLKKTMKGSSTPVKN

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	8.26 RPM	8.84 RPM
SRP017611_kidney	6.80 RPM	7.01 RPM
SRP017611_liver	4.25 RPM	3.34 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_113 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_113 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 17 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000001497	1 retrocopy	retro_amel_1860,
Canis familiaris	ENSCAFG00000006518	1 retrocopy	retro_cfam_2154,
Choloepus hoffmanni	ENSCHOG00000002554	3 retrocopies	retro_chof_1387, retro_chof_390, retro_chof_71,
Cavia porcellus	ENSCPOG00000011021	2 retrocopies	retro_cpor_1437, retro_cpor_706,
Echinops telfairi	ENSETEG00000012307	2 retrocopies	retro_etel_1571, retro_etel_1652,
Felis catus	ENSFCAG00000000133	1 retrocopy	retro_fcat_113 ,
Homo sapiens	ENSG00000104671	1 retrocopy	retro_hsap_1780,
Gorilla gorilla	ENSGGOG00000013074	1 retrocopy	retro_ggor_2236,
Myotis lucifugus	ENSMLUG00000028330	2 retrocopies	retro_mluc_1616, retro_mluc_2026,
Macaca mulatta	ENSMMUG00000013735	1 retrocopy	retro_mmul_1241,
Monodelphis domestica	ENSMODG00000019010	1 retrocopy	retro_mdom_1260,
Nomascus leucogenys	ENSNLEG00000011906	2 retrocopies	retro_nleu_1311, retro_nleu_2969,
Oryctolagus cuniculus	ENSOCUG00000010968	1 retrocopy	retro_ocun_917,
Ochotona princeps	ENSOPRG00000005061	1 retrocopy	retro_opri_950,
Pan troglodytes	ENSPTRG00000020134	1 retrocopy	retro_ptro_1191,
Tarsius syrichta	ENSTSYG00000013306	1 retrocopy	retro_tsyr_893,
Tursiops truncatus	ENSTTRG00000012439	1 retrocopy	retro_ttru_780,