RetrogeneDB ID: retro_fcat_118

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A3:140378807..140379641(-)
• Located in intron of: ENSFCAG00000008983

Retrocopy information

• Ensembl ID: ENSFCAG00000026210
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000025135
• Aliases: None
• Description: None

Sequence

>retro_fcat_118
ATGTCGTCACACACCCGCGTGGCTCTGGTCACCGGGGCCAACAAGGGCATCGGCTTCGCCATCGTGCGCGACCTGTGCCG
GCAGTTTTCGGGGGACGTGGTGCTCACGGCGCGGGATGAGGCGCGGGGACAGGCGGCAGTGCAGCGGCTCCAGGCCGAAG
GACTGAGCCCCCGCTTCCACCTGCTGGATATCGACGACCTGCAGAGCATCCGCGCCATGCGCGACTTCCTGCGCAAGGAG
TACGGGGGCCTGGACGTGCTGGTCAACAACGCGGGCATCGCCTTCAAGACTAATGATCCGACACCGTTTCATATTCAAGC
AGAAGTGACGATGAAAACAAACTTCTTTGGTACCCAAGACGTGTGCACAGAACTGCTGCCTCTAATGAAACCCCAAGGCA
GAGTGGTCAATGTGTCTAGCATAGTGAGCCTCAGATCGCTTAAAAACTGCAGCCCAGGACTGCAGCAGAAGTTCAGAAGT
GAAACCATCACAGAGGAGGAGCTGGTGGAGCTCATGAACAAGTTCGTGGAAGACACAAAGAACGGGGTGCACAGGAAGGA
GGGCTGGCCTGATACTGCATATGGAGTGACAAAAATTGGTGTCACGGTCCTGTCCAGAATCCATGCCAGGAAACTGAGTG
AGCAGAGGAGAGGGGACAAGATCCTCCTGAATGCCTGCTGCCCTGGGTGGGTGAGAACAGACATGGCCGGACCTAGAGCC
ACTAAAAGCCCAGAAGAAGGAGCAGAGACCCCCGTCTACTTGGCCCTTTTGCCCTCAGATGCTGAGGGACCTCACGGGGA
GTTTGTTATGGAGAAGAAAGTTGAACAATGGTGA

Alignment

ORF - retro_fcat_118 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.92 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSSHTRVALVTGANKGIGFAIVRDLCRQFSGDVVLTARDEARGQAAVQRLQAEGLSPRFHLLDIDDLQSI
          MSSHTRVALVTGANKGIGFAIVRDLCRQFSGDVVLTARDEARGQAAVQRLQAEGLSPRFHLLDIDDLQSI
Retrocopy MSSHTRVALVTGANKGIGFAIVRDLCRQFSGDVVLTARDEARGQAAVQRLQAEGLSPRFHLLDIDDLQSI

Parental  RAMRDFLRKEYGGLDVLVNNAGIAFKTNDPTPFHIQAEVTMKTNFFGTRDVCTELLPLMKPQGRVVNVSS
          RAMRDFLRKEYGGLDVLVNNAGIAFKTNDPTPFHIQAEVTMKTNFFGT.DVCTELLPLMKPQGRVVNVSS
Retrocopy RAMRDFLRKEYGGLDVLVNNAGIAFKTNDPTPFHIQAEVTMKTNFFGTQDVCTELLPLMKPQGRVVNVSS

Parental  IVSLRSLKNCSPGLQQKFRSETITEEELVELMNKFVEDTKNGVHRKEGWPDTAYGVTKIGVTVLSRIHAR
          IVSLRSLKNCSPGLQQKFRSETITEEELVELMNKFVEDTKNGVHRKEGWPDTAYGVTKIGVTVLSRIHAR
Retrocopy IVSLRSLKNCSPGLQQKFRSETITEEELVELMNKFVEDTKNGVHRKEGWPDTAYGVTKIGVTVLSRIHAR

Parental  KLSEQRRGDK-LLNACCPGWVR-DMAGPRATKSPEEGAETPVYLALLPSDAEGPHGEFVMEKKVEQW
          KLSEQRRGDK.LLNACCPGWVR.DMAGPRATKSPEEGAETPVYLALLPSDAEGPHGEFVMEKKVEQW
Retrocopy KLSEQRRGDKILLNACCPGWVRTDMAGPRATKSPEEGAETPVYLALLPSDAEGPHGEFVMEKKVEQW

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	2.41 RPM	2.18 RPM
SRP017611_kidney	46.38 RPM	27.93 RPM
SRP017611_liver	80.87 RPM	60.86 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_118 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_118 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000031486	1 retrocopy	retro_cfam_1498,
Felis catus	ENSFCAG00000025135	1 retrocopy	retro_fcat_118 ,
Monodelphis domestica	ENSMODG00000021047	1 retrocopy	retro_mdom_278,