RetrogeneDB ID: retro_fcat_790

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B2:115365700..115365998(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: POLE4
• Ensembl ID: ENSFCAG00000005983
• Aliases: None
• Description: polymerase (DNA-directed), epsilon 4, accessory subunit [Source:HGNC Symbol;Acc:18755]

Sequence

>retro_fcat_790
GAGGGGGAGGGGCCAAGAGGGGAGGCAGAGGCACAGCCCCAGGCCCCAGTAAGTGTGCGGGGGCTCATCTCTCCGGGTGG
CCTCTGGCAGGAATGAAGGCCATGGTAGAGGCAGACTTGACCTGACCCTCGAGGGCCAGGAAGCCATCTTCATTCTGGCA
CAAGCCTTGGAGACCATTGTGGTGACCACTGCACAAGATGCCCATTGCTGTGCTTAACAAGGAAAAGGGGAAAACCCTCC
AGAGGAGAGATTTGGGTCATGTAATTGAAGCTGTGGATGATTTGCTTTTCTGGAAGGA

Alignment

ORF - retro_fcat_790 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.67 %
• Parental protein coverage: 84.87 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  EEEGPSGEAAAPPPQAPTSV-PGARLSRLPLARVKALVKADP-DVTLAGQEAIFILARAAELFVETIAKD
          E.EGP.GEA.A.P.QAP.SV..GA.LS..PLA..KA.V.AD..D.TL.GQEAIFILA.A.E..V.T.A.D
Retrocopy EGEGPRGEAEAQP-QAPVSV<AGAHLSGWPLAGMKAMVEADL<DLTLEGQEAIFILAQALETIVVTTAQD

Parental  AYCCAQQG-KRKTLQRRDLDNAIEAVDE-FAFLEG
          A.CCA.QG.K.KTLQRRDL...IEAVD..FAFLEG
Retrocopy AHCCA*QG>KGKTLQRRDLGHVIEAVDD<FAFLEG

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	4.59 RPM
SRP017611_kidney	0.00 RPM	12.57 RPM
SRP017611_liver	0.00 RPM	7.89 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_790 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_790 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 10 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017073	1 retrocopy	retro_amel_394,
Callithrix jacchus	ENSCJAG00000017156	1 retrocopy	retro_cjac_1087,
Cavia porcellus	ENSCPOG00000027003	1 retrocopy	retro_cpor_1102,
Felis catus	ENSFCAG00000005983	1 retrocopy	retro_fcat_790 ,
Homo sapiens	ENSG00000115350	1 retrocopy	retro_hsap_2765,
Gorilla gorilla	ENSGGOG00000004491	1 retrocopy	retro_ggor_1924,
Mustela putorius furo	ENSMPUG00000008356	1 retrocopy	retro_mputfur_305,
Nomascus leucogenys	ENSNLEG00000001111	1 retrocopy	retro_nleu_670,
Pongo abelii	ENSPPYG00000012258	1 retrocopy	retro_pabe_2246,
Pan troglodytes	ENSPTRG00000012105	1 retrocopy	retro_ptro_1872,