RetrogeneDB ID: retro_fcat_437

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A3:89628214..89628693(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARL14EP
• Ensembl ID: ENSFCAG00000028620
• Aliases: None
• Description: ADP-ribosylation factor-like 14 effector protein [Source:HGNC Symbol;Acc:26798]

Sequence

>retro_fcat_437
TTTCTGAGAACAAAATTTGGAAGACAGCTTGTACTTGGCTGGAAGCTTTGTCCAAAATGTACACAGATAATCAATGGCAA
TGTGGCTGTTGATTCTCAGAACAGCAGAAAGAAAACCTGATTCAGAATGGAATAACTGCTAAAGCTGTGAGGTCATTACA
GTTTGCAAACCCAGGAAAGCAAACTGAATTTGCTCCAGAAACTGGAGAACGAGAAAAAAAGAAGGTTCACAAAAAAGGCA
ACCACTGGTTCTGACAGGTAAGTGATACCAGTAAAGAATCAGGTCTGTGATAGCCTGGGTCTCCTGGCTCTCAGGGCAAC
GGACTCTCTGACTGCCTTGATGAAGACTATTTAGGATGTTTCTATACTTGTCCTGTCCGTGGTTCCACCAAATGTGAAGC
TGAATGCCACTGGGACCACAAGTAACTGAATGAGCAAGTTGAAATAGGAGGAGAAATCACTCATAATAAACATGCTGGA

Alignment

ORF - retro_fcat_437 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.12 %
• Parental protein coverage: 62.16 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  FLSAKFGRQLVPGWKLCPKCTQIINGSVDVDSE-DRQRRKPDSDGRTAKALRSLQFANPGKQTEFAPETG
          FL..KFGRQLV.GWKLCPKCTQIING.V.VDS....Q.......G.TAKA.RSLQFANPGKQTEFAPETG
Retrocopy FLRTKFGRQLVLGWKLCPKCTQIINGNVAVDSQ<EQQKENLIQNGITAKAVRSLQFANPGKQTEFAPETG

Parental  KRE-KRRLTKNATAGSDRQVIPAKSKVYDSQGLLIFSGMD-LCDCLDEDCLGCFYACPACGSTKCGAECR
          .RE.KRR.TK.AT.GSDR.VIP.K..V.DS.GLL.....D.L.DCLDED.LGCFY.CP..GSTKC.AEC.
Retrocopy ERE>KRRFTKKATTGSDR*VIPVKNQVCDSLGLLALRATD<LSDCLDEDYLGCFYTCPVRGSTKCEAECH

Parental  CDRKWLYEQIEIEGGEIIHNKHAG
          .D.K.L.EQ.EI.GGEI.HNKHAG
Retrocopy WDHK*LNEQVEI-GGEITHNKHAG

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	34.43 RPM
SRP017611_kidney	0.00 RPM	25.87 RPM
SRP017611_liver	0.00 RPM	16.68 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_437 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_437 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 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000012417	1 retrocopy	retro_btau_1266,
Choloepus hoffmanni	ENSCHOG00000012698	1 retrocopy	retro_chof_1155,
Felis catus	ENSFCAG00000028620	1 retrocopy	retro_fcat_437 ,
Microcebus murinus	ENSMICG00000011547	2 retrocopies	retro_mmur_1003, retro_mmur_131,
Macaca mulatta	ENSMMUG00000017590	2 retrocopies	retro_mmul_1793, retro_mmul_984,
Mus musculus	ENSMUSG00000027122	1 retrocopy	retro_mmus_3319,