RetrogeneDB ID: retro_fcat_1567

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D3:82156809..82157270(-)
• Located in intron of: ENSFCAG00000029552

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000005583
• Aliases: None
• Description: None

Sequence

>retro_fcat_1567
CCACGCTCAAGGTCCAGCCTGGACCCCAAGTGCGGGAGGCTATGTTCCATGAGGACAGAGGACCTACTCAGGAACTATTT
CCCCAAGAAGACTTCTGAGCTGGAAGCATTTTTAAAGGATCCAGCTCTCCATGAAGCTAACCCGAGCAATCTGAGGGCCT
CATTGGGTGTCCTGGTGCCTAATCCTGTCAAGGGGAAAGAGAAGGAAGAGCAGAAGAAACTGCAAGAGAAGGAAGATGAG
GATTAAAAGATGGGAGGGCAAGCTGAGGGCCGAGGTTCTCCCAGGAGTCCAGTAAATGGCAAGAAAATCGTGATCCTCTT
GCAGCACCTGCCGCCTGAGACCGAGGATGTCACTGGGCAGTCACCCTGGCCCCCGCCTGGCTGCAGCTGGAGATACCTCG
GATTGAGGACAGCGTCACTTTTGGAGTGGCTGCCCGGCAGGAGGTGTGTGAGCTGAAGACA

Alignment

ORF - retro_fcat_1567 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.77 %
• Parental protein coverage: 61.85 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PEAQAKVDVFREDLCT-KTENLLGSYFPKKISELDAFLKEPALNEANLSNLKAPLDIPVPDPVKEKEKEE
          P......D.....LC...TE.LL..YFPKK.SEL.AFLK.PAL.EAN.SNL.A.L...VP.PVK.KEKEE
Retrocopy PRSRSSLDPKCGRLCSMRTEDLLRNYFPKKTSELEAFLKDPALHEANPSNLRASLGVLVPNPVKGKEKEE

Parental  RKKQQEKEDKDGKKKEEDEDKGPPCGPVNCNEKIVVLLQRLKPEIKDVIEQ-LNLVTTWLQLQIPRIEDG
          .KK.QEKED.D.K.....E..G.P..PVN...KIV.LLQ.L.PE..DV..Q...L...WLQL.IPRIED.
Retrocopy QKKLQEKEDED*KMGGQAEGRGSPRSPVN-GKKIVILLQHLPPETEDVTGQ<VTLAPAWLQLEIPRIEDS

Parental  NNFGVAVQEKVFELMT
          ..FGVA....V.EL.T
Retrocopy VTFGVAARQEVCELKT

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	35.81 RPM
SRP017611_kidney	0.00 RPM	61.11 RPM
SRP017611_liver	0.00 RPM	33.46 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1567 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1567 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 9 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000021395	1 retrocopy	retro_btau_1189,
Canis familiaris	ENSCAFG00000011924	1 retrocopy	retro_cfam_246,
Equus caballus	ENSECAG00000016855	1 retrocopy	retro_ecab_1001,
Felis catus	ENSFCAG00000005583	1 retrocopy	retro_fcat_1567 ,
Felis catus	ENSFCAG00000005585	1 retrocopy	retro_fcat_1605,
Macropus eugenii	ENSMEUG00000014712	1 retrocopy	retro_meug_1052,
Mus musculus	ENSMUSG00000022216	1 retrocopy	retro_mmus_466,
Rattus norvegicus	ENSRNOG00000019041	1 retrocopy	retro_rnor_50,
Tursiops truncatus	ENSTTRG00000008620	1 retrocopy	retro_ttru_569,