RetrogeneDB ID: retro_fcat_843

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B3:64284731..64285259(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPS26
• Ensembl ID: ENSFCAG00000028185
• Aliases: None
• Description: mitochondrial ribosomal protein S26 [Source:HGNC Symbol;Acc:14045]

Sequence

>retro_fcat_843
GCCAAGTCCAAGGTCGGGGGCGTGGCGACCCCGCCTGAGGTGGGTTCTGTAGAGCTCTTCAGGCAGACCGAGCATTTCCG
GCAGTACCGCCAGTCGATGCGCGCCCTCAGGCTGGAGTTCGTGTCCAAGGTATGGAAGAAGGTGCACGAGGCCTGGGCAG
GGAACCTGGCAGAGGGTAAGGTGCTGCAGGATGCAGCTGACTACAGTAACCTGCCGGCTTGGAACCGGGCGGAGAACCAG
CAACTGCACGAGCTATGGTTAGGGGGACTGCGGCAGGAGGCGGAGGTGCGGGAGCAGGAGCAGTGGCAAGTGGAGGAGAA
GGCCCCGTGGGCCGAGAGGCGCAGGCCTGGGAGCAGCCAAAGGATCAGGAAGGTGCGGCAGCGACAGGAGGAGGCAAAAC
ATTTCATCACCTGAGAGAATCTGGAGGCGTGGGTAGAAGAAGTGTTCGACTCCCTGAAGAGCTACAACTGGGCCATCACC
AGAGAGGGACTGGTACCAGGTCAGGCCACAGCACAGCACAAGGGCTCT

Alignment

ORF - retro_fcat_843 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.42 %
• Parental protein coverage: 83.41 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AKSKLGRVTTPPAVDPVEFFVLTERYRQYRQTVRALRLEFVSEVRKKMHEARAGVLAERKALQEATEHRD
          AKSK.G.V.TPP.V..VE.F..TE..RQYRQ..RALRLEFVS.V.KK.HEA.AG.LAE.K.LQ.A.....
Retrocopy AKSKVGGVATPPEVGSVELFRQTEHFRQYRQSMRALRLEFVSKVWKKVHEAWAGNLAEGKVLQDAADYSN

Parental  LMAWNQAENQRLHELRLARLRQEA--REQEQRQAEEKARRA-REAQAWAQLKEQEAL-QLQEEAKNFITR
          L.AWN.AENQ.LHEL.L..LRQEA..REQEQ.Q.EEKA..A.REAQAW.Q.K.QE...Q.QEEAK.FIT.
Retrocopy LPAWNRAENQQLHELWLGGLRQEAEVREQEQWQVEEKAPWA<REAQAWEQPKDQEGA>QRQEEAKHFIT*

Parental  ENLEARVEEALDSPKSYNWAITREGLV---VRPQHKGS
          ENLEA.VEE..DS.KSYNWAITREGLV......QHKGS
Retrocopy ENLEAWVEEVFDSLKSYNWAITREGLVPGQATAQHKGS

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	15.95 RPM
SRP017611_kidney	0.00 RPM	26.90 RPM
SRP017611_liver	1.31 RPM	9.00 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_843 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_843 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000024910	2 retrocopies	retro_dnov_2149, retro_dnov_780,
Felis catus	ENSFCAG00000028185	1 retrocopy	retro_fcat_843 ,
Loxodonta africana	ENSLAFG00000007936	1 retrocopy	retro_lafr_268,
Mus musculus	ENSMUSG00000037740	1 retrocopy	retro_mmus_978,
Nomascus leucogenys	ENSNLEG00000027041	1 retrocopy	retro_nleu_2813,