RetrogeneDB ID: retro_fcat_1841

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: F2:26109538..26109885(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TESC
• Ensembl ID: ENSFCAG00000002633
• Aliases: None
• Description: tescalcin [Source:HGNC Symbol;Acc:26065]

Sequence

>retro_fcat_1841
CCATCGTGTCCTACTTATGACCCATCCACACCACCATGGAGCCAGAAAGAAAAGGTGAGGTTTCTGTTCCACACGTAGGA
CTCAGTCAGCAAAATTCACATCACCCAGGAAGAATATGAAAACGTGGGCAAAGAAGTCTTGAGCAATTGCCACAAGGAAA
AGGACTCTGCTCACTCCATTACAGACGGGGCATGATGGAGGTGGCTCGCACCTGCATGAGGCAGATGGAGGTGGATCAAG
AGTATGAGGGAGTCACTTTCAATGACTTCCTGAAGATCTGGCAGATGATAGACATCATGGACAAGATGCACTTCAGCTTC
ATTAAGATGGACACCATTGCTCTTTGT

Alignment

ORF - retro_fcat_1841 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.32 %
• Parental protein coverage: 53.42 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PIDTTMDEEQVQLCRKEKLRFLFHMYDSDSDGRITLEEYRNVVEELLSGNPHIEKESARSIADGA-MMEA
          P...T.D........KEK.RFLFH..DS.S...IT.EEY.NV..E.LS.N.H.EK.SA.SI.DGA.MME.
Retrocopy PSCPTYDPSTPPWSQKEKVRFLFHT*DSVSKIHITQEEYENVGKEVLS-NCHKEKDSAHSITDGA<MMEV

Parental  ASVCVGQMEPDQVYEGITFDDFLKIWQGIDIETKMHVRFLNMETIALC
          A..C..QME.DQ.YEG.TF.DFLKIWQ.IDI..KMH..F..M.TIALC
Retrocopy ARTCMRQMEVDQEYEGVTFNDFLKIWQMIDIMDKMHFSFIKMDTIALC

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	16.53 RPM
SRP017611_kidney	0.00 RPM	1.13 RPM
SRP017611_liver	0.00 RPM	0.61 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1841 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1841 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000012517	1 retrocopy	retro_amel_1156,
Canis familiaris	ENSCAFG00000009300	1 retrocopy	retro_cfam_1310,
Equus caballus	ENSECAG00000011177	1 retrocopy	retro_ecab_1005,
Felis catus	ENSFCAG00000002633	1 retrocopy	retro_fcat_1841 ,
Myotis lucifugus	ENSMLUG00000001775	1 retrocopy	retro_mluc_531,
Mus musculus	ENSMUSG00000029359	1 retrocopy	retro_mmus_212,
Rattus norvegicus	ENSRNOG00000001128	1 retrocopy	retro_rnor_244,