RetrogeneDB ID: retro_fcat_1968

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: X:23594525..23594832(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SAP30L
• Ensembl ID: ENSFCAG00000014985
• Aliases: None
• Description: SAP30-like [Source:HGNC Symbol;Acc:25663]

Sequence

>retro_fcat_1968
ATCCAGAGTGTATTAAATAAAAGGAAGAGGAAGACAAGTGACAATGGCAGAAATTCTGAGCACAACACCGACATCCCTGA
AGTTGATTCGTTTCAGCTGCAGATGAACACTCTATGATGTTATAAATGACACTATAAATTGCAGACCAGCTCGGGCTTCC
ATGAGACCCAGTTAGCAGAAACTGTCAGCTGACAATTCAGGAACATAACTGTGAATGAGAAAGATACCCTTGCCTACTTA
ATCTCCCCTAGTAAAGAGTAACGGGAGTAGAATGGCCCAGAAATTGAAAGGCCACAAGCAGCTTGAG

Alignment

ORF - retro_fcat_1968 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.15 %
• Parental protein coverage: 56.59 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IQSVRNKRKRKTSDDGGDSPEHDTDIPEVDLFQLQVNTLRRYKRHYKLQTRPGFNKAQLAETVSRHFRNI
          IQSV.NKRKRKTSD.G..S.EH.TDIPEVD.FQLQ.NTL..YK.HYKLQT..GF...QLAETVS..FRNI
Retrocopy IQSVLNKRKRKTSDNGRNS-EHNTDIPEVDSFQLQMNTL*CYK*HYKLQTSSGFHETQLAETVS*QFRNI

Parental  PVNEKETLAYFIY-MVKSNKSRLDQKSEGGKQLE
          .VNEK.TLAY.I...VKSN.SR..QK..G.KQLE
Retrocopy TVNEKDTLAYLIS>LVKSNGSRMAQKLKGHKQLE

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	4.71 RPM
SRP017611_kidney	0.00 RPM	4.02 RPM
SRP017611_liver	0.00 RPM	4.04 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1968 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1968 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.

---

Parental genes homology:

Parental genes homology involve 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000016695	1 retrocopy	retro_amel_588,
Bos taurus	ENSBTAG00000004000	1 retrocopy	retro_btau_1024,
Canis familiaris	ENSCAFG00000017642	1 retrocopy	retro_cfam_2138,
Felis catus	ENSFCAG00000014985	1 retrocopy	retro_fcat_1968 ,
Mustela putorius furo	ENSMPUG00000013575	1 retrocopy	retro_mputfur_955,
Ochotona princeps	ENSOPRG00000014552	2 retrocopies	retro_opri_176, retro_opri_953,