RetrogeneDB ID: retro_fcat_186

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A1:144788118..144788373(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000015176
• Aliases: None
• Description: None

Sequence

>retro_fcat_186
GCGCTCACTGTCAGAGTAATTTATTGTGGCGCTTGAGGCCACAAGTGTAAGTATCTTAAGCTCAAGAAGAAGTTAGAAGA
TGATGTCCCCAAATGCCTGGACATCTGCGGCGAGGGGACTCCCCAGGCCACATGCTTCTTTGAAGTGATGGTACCAAGGA
AGTTGGTTCACTCCAAGAAGAGAGGTGATGGCTACATGGACAAGGAGAGCAAATTTCTGAAGCTGGTGGCCGCCATGAAA
GCCAGCTTGGCTCAG

Alignment

ORF - retro_fcat_186 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.12 %
• Parental protein coverage: 98.84 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ALAIRVVYWSGKKKKERYLQLKKKLEDEFPGCLDICGEGTPQATGFFEVMVGGKLVHSKKRGDGYVDTES
          AL..RV.Y......K..YL.LKKKLED..P.CLDICGEGTPQAT.FFEVMV..KLVHSKKRGDGY.D.ES
Retrocopy ALTVRVIYCGA*GHKCKYLKLKKKLEDDVPKCLDICGEGTPQATCFFEVMVPRKLVHSKKRGDGYMDKES

Parental  KFLKLVAAIKAALAQ
          KFLKLVAA.KA.LAQ
Retrocopy KFLKLVAAMKASLAQ

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	88.26 RPM
SRP017611_kidney	0.00 RPM	28.13 RPM
SRP017611_liver	0.00 RPM	6.47 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_186 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_186 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 8 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000015208	1 retrocopy	retro_amel_1135,
Bos taurus	ENSBTAG00000008203	2 retrocopies	retro_btau_1527, retro_btau_756,
Canis familiaris	ENSCAFG00000004074	1 retrocopy	retro_cfam_1368,
Choloepus hoffmanni	ENSCHOG00000013206	2 retrocopies	retro_chof_1486, retro_chof_61,
Felis catus	ENSFCAG00000015176	2 retrocopies	retro_fcat_108, retro_fcat_186 ,
Mustela putorius furo	ENSMPUG00000004433	1 retrocopy	retro_mputfur_326,
Rattus norvegicus	ENSRNOG00000013548	2 retrocopies	retro_rnor_1819, retro_rnor_688,
Ictidomys tridecemlineatus	ENSSTOG00000001294	1 retrocopy	retro_itri_578,