RetrogeneDB ID: retro_fcat_755

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B2:59157947..59158649(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM184C
• Ensembl ID: ENSFCAG00000015410
• Aliases: None
• Description: transmembrane protein 184C [Source:HGNC Symbol;Acc:25587]

Sequence

>retro_fcat_755
AGCTTTTCAAATGCTTGGAATTACTTGGTTATAATAAACAGCATGTCACAATTCTTTGCCATGTATCTTCTGCTGCTATT
TTATAAAGTACTGAAGGAAGAGTTGGGTCCAATTCAACCTGTTGGCAAATTTCTTTGTTTAAAGCTGGTGGCTTTTGTTT
CCTTTTGGCAAGCAGTCGTTATCGCTTTGTTGGTTAAAGTTGGCGTTATTTCTGAAAAGCATACATGGGAATGGCAAACT
GTAGAAGCTGTGGCTACAGGACTCCAGGACTTTATCATCTGTATTGAGATGTTCCTTGCTACTATTGCTCATCACTACAC
TTTCTCATATAAACCATAGGTCCAAAGAAGCAGAAGAGGGTCATGCTTTGATTCCTTTCTTGCCATGTGGGATGGTTCAG
ATATTAGGGATGATATTTCTGAGCAAGTAAGGCATGTTGGATGGACAGTCATGGGACATTCTAGGAAGAAGTTCTTTCCT
GAGGACCAAGATCAAAATGAACATACAAGCTTGTTACCATCATCATCACAAGATGCAATTTCTGTTGCCTCTTCTGTACC
ACCTTCACCCATGGGTCACTACCAAGGGTTTGGACACACTGTGACTCCCCAGAGTATGCTTCCTATGGATAACATACCTG
ATGAAATGTATAATGACACTACAGGAGAGAAAAATGAACTTTCAGATAAATCTGTGGCCTCC

Alignment

ORF - retro_fcat_755 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.6 %
• Parental protein coverage: 53.42 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SFSNAWTYLVIINNMSQLFAMYCLLLFYKVLKEELSPIQPVGKFLCVKLVVFVSFWQAVVIALLVKVGVI
          SFSNAW.YLVIIN.MSQ.FAMY.LLLFYKVLKEEL.PIQPVGKFLC.KLV.FVSFWQAVVIALLVKVGVI
Retrocopy SFSNAWNYLVIINSMSQFFAMYLLLLFYKVLKEELGPIQPVGKFLCLKLVAFVSFWQAVVIALLVKVGVI

Parental  SEKHTWEWQTVEAVATGLQDFIICIEMFLAAIAHHYTFSYKPYVQEAEEGSCFDSFLAMWDVSDIRDDIS
          SEKHTWEWQTVEAVATGLQDFIICIEMFLA.IAHHYTFSYKP.VQ....GSCFDSFLAMWD.SDIRDDIS
Retrocopy SEKHTWEWQTVEAVATGLQDFIICIEMFLATIAHHYTFSYKP*VQRSRRGSCFDSFLAMWDGSDIRDDIS

Parental  EQVRHVGRTVMGHPRKKFFPEDQDQNEHTSLLSSSSQDAISVASSVPPSPMGHYQGFGHTVTPQTTPTMA
          EQVRHVG.TVMGH.RKKFFPEDQDQNEHTSLL.SSSQDAISVASSVPPSPMGHYQGFGHTVTPQ....M.
Retrocopy EQVRHVGWTVMGHSRKKFFPEDQDQNEHTSLLPSSSQDAISVASSVPPSPMGHYQGFGHTVTPQSMLPMD

Parental  NIPDEMYNDTTGEKNELSDKSVAS
          NIPDEMYNDTTGEKNELSDKSVAS
Retrocopy NIPDEMYNDTTGEKNELSDKSVAS

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	33.86 RPM
SRP017611_kidney	0.00 RPM	67.92 RPM
SRP017611_liver	0.00 RPM	25.98 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_755 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_755 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002418	1 retrocopy	retro_cjac_2276,
Felis catus	ENSFCAG00000015410	2 retrocopies	retro_fcat_1929, retro_fcat_755 ,
Homo sapiens	ENSG00000164168	1 retrocopy	retro_hsap_4870,
Macaca mulatta	ENSMMUG00000004977	1 retrocopy	retro_mmul_2611,
Otolemur garnettii	ENSOGAG00000015819	1 retrocopy	retro_ogar_3118,
Tarsius syrichta	ENSTSYG00000005633	1 retrocopy	retro_tsyr_1001,