RetrogeneDB ID: retro_fcat_287

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A1:200073469..200073816(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C19orf70
• Ensembl ID: ENSFCAG00000011836
• Aliases: None
• Description: chromosome 19 open reading frame 70 [Source:HGNC Symbol;Acc:33702]

Sequence

>retro_fcat_287
ATGGTGCCCCAAGTGTGGTTGCTGATGATGTTTCTCATCGAGGGCAGTGTGGCTGGGGGCACTGTCTACCTGGTGTATGA
CCAGGAGCTGCTGGGGCCTAGTGACAAGAGCCAGACTGTCCCTCGGAAGTCTGAGGAGGTAGTTCCCCCAGCCATAGACT
AGTTAGCCACTGTGTGTGTGAGCAGACCAGTCTGAAGATACCCCAATTCCCAGCACCCCCAAAGTTTAACTTTCACATCC
ACAGGTCCTGGAATTCAGACATCATAATGGTGATGTCGGCTCTCTCAGTGGCTCCCTCCAAGGAGAGCTGGGAGTACCTA
AGGAGCAAACTAAGTAGCCTGTCAGAG

Alignment

ORF - retro_fcat_287 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.79 %
• Parental protein coverage: 97.46 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MVPRVWSLMRFLIKGSVAGGAVYLVYDQELLGPSDKSQAVLQKAEEVVPPAL-YQFSQYVCEQTGLKIPQ
          MVP.VW.LM.FLI.GSVAGG.VYLVYDQELLGPSDKSQ.V..K.EEVVPPA.....S..VCEQT.LKIPQ
Retrocopy MVPQVWLLMMFLIEGSVAGGTVYLVYDQELLGPSDKSQTVPRKSEEVVPPAI<RLVSHCVCEQTSLKIPQ

Parental  LPAPPKFNFHIRDSWNSGIIKVMSALSAAPSK-ACEYSREGWDYLKE
          .PAPPKFNFHI..SWNS.II.VMSALS.APSK...EY.R.....L.E
Retrocopy FPAPPKFNFHIHRSWNSDIIMVMSALSVAPSKESWEYLRSKLSSLSE

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	0.11 RPM	10.33 RPM
SRP017611_kidney	0.10 RPM	23.81 RPM
SRP017611_liver	0.00 RPM	6.77 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_287 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_287 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 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000018796	2 retrocopies	retro_cfam_1706, retro_cfam_756,
Callithrix jacchus	ENSCJAG00000017076	2 retrocopies	retro_cjac_2329, retro_cjac_735,
Felis catus	ENSFCAG00000011836	1 retrocopy	retro_fcat_287 ,
Loxodonta africana	ENSLAFG00000026050	1 retrocopy	retro_lafr_1241,
Macaca mulatta	ENSMMUG00000028920	1 retrocopy	retro_mmul_251,
Monodelphis domestica	ENSMODG00000001268	1 retrocopy	retro_mdom_1960,
Mustela putorius furo	ENSMPUG00000006136	2 retrocopies	retro_mputfur_1001, retro_mputfur_217,
Procavia capensis	ENSPCAG00000006583	1 retrocopy	retro_pcap_106,
Tupaia belangeri	ENSTBEG00000013386	1 retrocopy	retro_tbel_1443,