RetrogeneDB ID: retro_fcat_1448

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D1:66305193..66305428(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MINOS1
• Ensembl ID: ENSFCAG00000003066
• Aliases: None
• Description: mitochondrial inner membrane organizing system 1 [Source:HGNC Symbol;Acc:32068]

Sequence

>retro_fcat_1448
ATGTCAGATTGTGAGCTCGGCAGGAAGTGGGACCAGTGTGTGGCAGATGTGGTCATGAAGACAGGTATTGGTTTTGGATT
AGGCCTTGTTTTCTCACTTCCCTGCTTTAAAAGAAGAATGTGGCCAATAGCCTTTGGTTCTGGCATGGAATGGAGAATGG
CCTCACTCCAACTGTCAGCATGATTTCCAGGCTCCCCATCTTCTACATGGAAAATCTGTCAGAGAGCAGGAGCAG

Alignment

ORF - retro_fcat_1448 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.22 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSDSELGRKWDRCMADAVVKIGTGFGLGLVFSLTFFKRRMWPLAFGSGMGLGMA-YSNCQHDFQAPYLLH
          MSD.ELGRKWD.C.AD.V.K.G.GFGLGLVFSL..FKRRMWP.AFGSGM...MA..SNCQHDFQAP.LLH
Retrocopy MSDCELGRKWDQCVADVVMKTGIGFGLGLVFSLPCFKRRMWPIAFGSGMEWRMA>HSNCQHDFQAPHLLH

Parental  GKYVKEQEQ
          GK.V.EQEQ
Retrocopy GKSVREQEQ

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	24.91 RPM
SRP017611_kidney	0.00 RPM	72.24 RPM
SRP017611_liver	0.00 RPM	19.00 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1448 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1448 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 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000003110	3 retrocopies	retro_amel_1685, retro_amel_502, retro_amel_689,
Felis catus	ENSFCAG00000003066	2 retrocopies	retro_fcat_1448 , retro_fcat_739,
Gallus gallus	ENSGALG00000004039	1 retrocopy	retro_ggal_19,
Loxodonta africana	ENSLAFG00000016199	1 retrocopy	retro_lafr_825,
Mus musculus	ENSMUSG00000050608	1 retrocopy	retro_mmus_2357,
Rattus norvegicus	ENSRNOG00000042696	2 retrocopies	retro_rnor_16, retro_rnor_2460,
Sus scrofa	ENSSSCG00000028414	1 retrocopy	retro_sscr_1171,
Tupaia belangeri	ENSTBEG00000004024	1 retrocopy	retro_tbel_4339,
Vicugna pacos	ENSVPAG00000011525	1 retrocopy	retro_vpac_607,