RetrogeneDB ID: retro_fcat_137

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B1:104128668..104129649(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000029540
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000019389
• Aliases: None
• Description: None

Sequence

>retro_fcat_137
ATGGCCCTGCTGTGCTACAACCGGGGCTGCGGTCAGCTCTTCGACCCCGAGACCAACTCCGACGATGCTTGCACATACCA
CCCAGGTGTTCCAGTCTTCCATGATGCCTTAAAGGGTTGGTCTTGCTGTAAGAGAAGAACAACTGATTTTTCTGATTTTT
TAAGCATTGCAGGCTGTACAAAAGGTAGGCATAATAGTGAGAAACCACCTGAGCCAGTCAAACCTGAAGTCAAGACTACT
GAGAAGAAAGAACTTTCTGAATTGAAGCCTAAGTTTCAGGAGCACATCATTCAAGCCCCTAAACCAGTAGAAGCAATAAA
AAGGCCAAGCCCAGATGAACCAATGACAAACTTGGAATTAAAAATATCTGCCTCCCTAAAACAAGCACTTGATAAACTTA
AACTGTCATCAGGGAATGAAGAAAATAAAAAAGAAGAGGACAGTGATGAAATTAAGATTGGGACCTCATGTAAAAATGGA
GGGTGTTCAAAGACATATCAAGGTCTGCAGAGTCTAGATGAAGTCTGTGTATATCATTCTGGAGTACCTATTTTTCATGA
AGGGATGAAATACTGGAGCTGTTGTAGAAGAAAAACTTCAGATTTCAAGACATTCTTAGCCCAGGAGGGCTGTACAACAG
GGAAACACGTGTGGACTAAGAAGGATGCTGGGAAAAAAGTCGTTCCATGTAGACATGACTGGCGTCAGACTGGAGGTGAA
GTCACCATTTCAGTATATGCTAAAAATTCACTCCCAGAACTTAGCCAAATAGTAGCAAATAGTACATTGTTAAATGTGCA
TATTGTATTTGAAGGAGAGAAGGAATTTCATCAAAATGTGAAATTATGGGGTGTGATTGATGTAACACGAAGTTATGTAA
CTATGACTGCACAAAGGATTGAGATCACCATGAGAAAAGCTGAGCCTATGCAGTGGGCAAGCCTTGAACTGCCTGCAACC
AAAAGCAGGAAGAACAAAAAG

Alignment

ORF - retro_fcat_137 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.64 %
• Parental protein coverage: 98.49 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MALLCYNRGCGQRFDPETNSDDACTYHPGVPVFHDALKGWSCCKRRTTDFSDFLSIAGCTKGRHNSEKPP
          MALLCYNRGCGQ.FDPETNSDDACTYHPGVPVFHDALKGWSCCKRRTTDFSDFLSIAGCTKGRHNSEKPP
Retrocopy MALLCYNRGCGQLFDPETNSDDACTYHPGVPVFHDALKGWSCCKRRTTDFSDFLSIAGCTKGRHNSEKPP

Parental  EPVKPEVKTTEKKELSELKPKFQEHIIQAPKPVEAIKRPSPDEPMTNLELKISASLKQALDKLKLSSGNE
          EPVKPEVKTTEKKELSELKPKFQEHIIQAPKPVEAIKRPSPDEPMTNLELKISASLKQALDKLKLSSGNE
Retrocopy EPVKPEVKTTEKKELSELKPKFQEHIIQAPKPVEAIKRPSPDEPMTNLELKISASLKQALDKLKLSSGNE

Parental  ENKKEEDSDEIKIGTSCKNGGCSKTYQGLQSLDEVCVYHSGVPIFHEGMKYWSCCRRKTSDFNTFLAQEG
          ENKKEEDSDEIKIGTSCKNGGCSKTYQGLQSLDEVCVYHSGVPIFHEGMKYWSCCRRKTSDF.TFLAQEG
Retrocopy ENKKEEDSDEIKIGTSCKNGGCSKTYQGLQSLDEVCVYHSGVPIFHEGMKYWSCCRRKTSDFKTFLAQEG

Parental  CTTGKHVWTKKDAGKKVVPCRHDWHQTGGEVTISVYAKNSLPELSQVVANSTLLNVHIVFEGEKEFHQNV
          CTTGKHVWTKKDAGKKVVPCRHDW.QTGGEVTISVYAKNSLPELSQ.VANSTLLNVHIVFEGEKEFHQNV
Retrocopy CTTGKHVWTKKDAGKKVVPCRHDWRQTGGEVTISVYAKNSLPELSQIVANSTLLNVHIVFEGEKEFHQNV

Parental  KLWGVIDVTRSYVTMTATKIEITMRKAEPMQWASLELPATKKQEEQK
          KLWGVIDVTRSYVTMTA..IEITMRKAEPMQWASLELPATK.....K
Retrocopy KLWGVIDVTRSYVTMTAQRIEITMRKAEPMQWASLELPATKSRKNKK

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	0.23 RPM	21.12 RPM
SRP017611_kidney	0.21 RPM	13.40 RPM
SRP017611_liver	0.00 RPM	11.12 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_137 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_137 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 33 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000000903	4 retrocopies	retro_cjac_2220, retro_cjac_2927, retro_cjac_4147, retro_cjac_815,
Echinops telfairi	ENSETEG00000013104	2 retrocopies	retro_etel_1713, retro_etel_1860,
Felis catus	ENSFCAG00000019389	1 retrocopy	retro_fcat_137 ,
Homo sapiens	ENSG00000110172	3 retrocopies	retro_hsap_1452, retro_hsap_1903, retro_hsap_2252,
Gorilla gorilla	ENSGGOG00000027396	3 retrocopies	retro_ggor_1117, retro_ggor_1118, retro_ggor_1679,
Loxodonta africana	ENSLAFG00000017340	1 retrocopy	retro_lafr_401,
Macaca mulatta	ENSMMUG00000005209	2 retrocopies	retro_mmul_1024, retro_mmul_1923,
Nomascus leucogenys	ENSNLEG00000007079	5 retrocopies	retro_nleu_1085, retro_nleu_1232, retro_nleu_1320, retro_nleu_752, retro_nleu_981,
Oryctolagus cuniculus	ENSOCUG00000014147	1 retrocopy	retro_ocun_1595,
Otolemur garnettii	ENSOGAG00000003523	1 retrocopy	retro_ogar_2724,
Pongo abelii	ENSPPYG00000003764	5 retrocopies	retro_pabe_1199, retro_pabe_1554, retro_pabe_1734, retro_pabe_1959, retro_pabe_461,
Pan troglodytes	ENSPTRG00000004164	3 retrocopies	retro_ptro_1253, retro_ptro_1595, retro_ptro_988,
Tupaia belangeri	ENSTBEG00000002910	1 retrocopy	retro_tbel_2891,
Tarsius syrichta	ENSTSYG00000004205	1 retrocopy	retro_tsyr_1581,