RetrogeneDB ID: retro_fcat_1722

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: E3:15155621..15155857(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000025454
• Aliases: None
• Description: None

Sequence

>retro_fcat_1722
GGCTTGATCGCACGGCGCCACCGCACGAAGCGGGCGTCCAGGGCCTGTACCTGCATTACTCTCTCTGGGAAGAAGCGCAG
AAAGCTCCCCCAGAGACAGCGTGCCCAGGAGGACAAAGCAGCCATGGGAGTGGCAGTCCCCACTAGGCAGCCAGGACTAG
TGAACCACAGCCCAAGCGGCAAAAGAAGGTTAACACTCCCCAGGAGGTAGACATGGAGAACCTTGAAAATGAGAGC

Alignment

ORF - retro_fcat_1722 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.9 %
• Parental protein coverage: 65.04 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GLITRHHLKKRASSARANITLSGKKRRKLLQQIRLAQKEKAAMEVEAPTRQ-ARTSELQPKRQKKTKAPQ
          GLI.R.H..KRAS.A...ITLSGKKRRKL.Q..R.AQ..KAAM.V..PTRQ.ARTSE.QPKRQKK...PQ
Retrocopy GLIARRHRTKRASRACTCITLSGKKRRKLPQRQR-AQEDKAAMGVAVPTRQ<ARTSEPQPKRQKKVNTPQ

Parental  DVDMEDLEDKS
          .VDME.LE..S
Retrocopy EVDMENLENES

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	27.43 RPM
SRP017611_kidney	0.00 RPM	21.13 RPM
SRP017611_liver	0.00 RPM	9.40 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1722 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1722 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 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006512	1 retrocopy	retro_amel_1386,
Bos taurus	ENSBTAG00000010465	2 retrocopies	retro_btau_1195, retro_btau_1799,
Canis familiaris	ENSCAFG00000015719	2 retrocopies	retro_cfam_1104, retro_cfam_757,
Felis catus	ENSFCAG00000025454	2 retrocopies	retro_fcat_1722 , retro_fcat_773,
Macaca mulatta	ENSMMUG00000013949	4 retrocopies	retro_mmul_1186, retro_mmul_1541, retro_mmul_1785, retro_mmul_1981,
Mus musculus	ENSMUSG00000071653	2 retrocopies	retro_mmus_1809, retro_mmus_759,
Otolemur garnettii	ENSOGAG00000033103	1 retrocopy	retro_ogar_811,
Rattus norvegicus	ENSRNOG00000019701	4 retrocopies	retro_rnor_1066, retro_rnor_1955, retro_rnor_851, retro_rnor_883,
Sus scrofa	ENSSSCG00000023323	2 retrocopies	retro_sscr_1162, retro_sscr_1163,