RetrogeneDB ID: retro_fcat_708

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B2:68715507..68716055(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000029637
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: NTPCR
• Ensembl ID: ENSFCAG00000014211
• Aliases: None
• Description: nucleoside-triphosphatase, cancer-related [Source:HGNC Symbol;Acc:28204]

Sequence

>retro_fcat_708
CACGTATTCCTCACGGGGCCCCCAGGAGTTGGAAAAACAGCGTTGGTCCAGAAAGCCAGTAAGATTTTAAAATCCTCTGG
TGTGCCTGTCAATGGATTTACGCAAAAGTCAGGGAGGAAATAGGATTCAACGTTGTCACATCATCCTGCACGCAGGAAGT
TTGGTCTAGAATTGGGTCAGAGCCTCTGCCTGGAAAACGCCAGTGCGGAGCTCGGCAGTACGTGGTGTATCTGACTCCCT
CGGAGCAGTCGCCACTTCCGGTCTTGAGGAGCGCGGGTCCCAGCAGAGGCCCAGGGCAGAGGGTGTGTGTCATGGATGAG
ACTGGGAAAGTAGAGCTGCTCAGTCAGCCTTTCGTCCAGGCTGTTCATCGGACGTTGTCCACCCCAGGAGTGTGTAATTC
TGGGCACAATCCCACAACTAAAGGAAAGCCGCTGGCCTTCGTGGAAGAGCTGAGAAACAGGTACGATGTTCGGGTGTATA
GCGTCACCAAGGAAAACAGAAAACACCTTTCACCAGATACTGTGACGTGTGTGCAGAGTGGCAGGAAG

Alignment

ORF - retro_fcat_708 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.62 %
• Parental protein coverage: 98.44 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  HHFFVFLPGVGKTTLIQKASEVLKSSGVPIDGFYTEEVRQAGRR-IGFDVVTLSGTRGVLSRIGYCSEPP
          H.F....PGVGKT.L.QKAS..LKSSGVP..GF........GR..IGF.VVT.S.T..V.SRIG..SEP.
Retrocopy HVFLTGPPGVGKTALVQKASKILKSSGVPVNGF----TQKSGRK<IGFNVVTSSCTQEVWSRIG--SEPL

Parental  PGKRECRVGQYVVDLTSFEQLALPVLRNAGSGSGPGQRVCVIDEIGKMELFSQPFIQAVRQTLSTPGT-V
          PGKR.C...QYVV.LT..EQ..LPVLR.AG...GPGQRVCV.DE.GK.EL.SQPF.QAV..TLSTPG..V
Retrocopy PGKRQCGARQYVVYLTPSEQSPLPVLRSAGPSRGPGQRVCVMDETGKVELLSQPFVQAVHRTLSTPGV>V

Parental  VLGTI-PVPKGKPLALVEEIRNRNDVQVFSVTKENRNRLLPDIVTCVQSGRQ
          .LGTI.P..KGKPLA.VEE.RNR.DV.V.SVTKENR..L.PD.VTCVQSGR.
Retrocopy ILGTI<PTTKGKPLAFVEELRNRYDVRVYSVTKENRKHLSPDTVTCVQSGRK

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	13.77 RPM
SRP017611_kidney	0.00 RPM	14.33 RPM
SRP017611_liver	0.00 RPM	16.48 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_708 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_708 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000018274	1 retrocopy	retro_cjac_1773,
Felis catus	ENSFCAG00000014211	1 retrocopy	retro_fcat_708 ,
Homo sapiens	ENSG00000135778	1 retrocopy	retro_hsap_3246,
Gorilla gorilla	ENSGGOG00000015198	1 retrocopy	retro_ggor_2209,
Macaca mulatta	ENSMMUG00000012614	1 retrocopy	retro_mmul_741,
Pongo abelii	ENSPPYG00000000108	1 retrocopy	retro_pabe_2691,
Pan troglodytes	ENSPTRG00000002116	1 retrocopy	retro_ptro_2194,