RetrogeneDB ID: retro_fcat_1188

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: C1:59336501..59336889(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000015773
• Aliases: None
• Description: None

Sequence

>retro_fcat_1188
ATGGACATGGACAAATGGATTCATTTAGAGCTGCGAAACAGGACATCCTCTGACGTGAAATAGATTGTCCTCAACAACTG
CCAGTTGATTGAAGGCAAAACTGAAGCCCTCCCAGATGAATCTGAAGAACTGGAGTTCTTAAGTACAATTAATGTAGGCC
TTGCCTCAGTCACAAACTTACCAATGTTAGACTTAAGAAGCTTGAACTAAATGATAACAGAATCTCAGGGGACCTCAAAG
TATTGGCAGAAAACTGTCCTAACCTCACACATATAAATTAAGTGGCAACAAAATTAAAGACCTTAGCACAATGAAACCAC
TGAGAAAGTTAGAAAACCTCAAGAGCTTAGACCTTTTCGATTGTGAGGTAACCGACCTGAACGATTAT

Alignment

ORF - retro_fcat_1188 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.69 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MEMDKRIHLELRNRTPSDVKELVLDNCRSIEGKIEGLTDEFEELEFLSTINVGLTSVANLPKLNKLKKL-
          M.MDK.IHLELRNRT.SDVK..VL.NC..IEGK.E.L.DE.EELEFLSTINVGL.SV.NLP.L..L..L.
Retrocopy MDMDKWIHLELRNRTSSDVK*IVLNNCQLIEGKTEALPDESEELEFLSTINVGLASVTNLPMLD-LRSL<

Parental  ELSDNRISGGLEVLAEKCPNLTHLN-LSGNKIKDLSTIEPLKKLENLKSLDLFNCEVTNLNDY
          EL.DNRISG.L.VLAE.CPNLTH.N.LSGNKIKDLST..PL.KLENLKSLDLF.CEVT.LNDY
Retrocopy ELNDNRISGDLKVLAENCPNLTHIN<LSGNKIKDLSTMKPLRKLENLKSLDLFDCEVTDLNDY

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	32.02 RPM
SRP017611_kidney	0.00 RPM	49.98 RPM
SRP017611_liver	0.00 RPM	18.40 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1188 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1188 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 11 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002339	2 retrocopies	retro_cjac_3305, retro_cjac_3799,
Dasypus novemcinctus	ENSDNOG00000015360	5 retrocopies	retro_dnov_1199, retro_dnov_1250, retro_dnov_1696, retro_dnov_836, retro_dnov_956,
Felis catus	ENSFCAG00000015773	1 retrocopy	retro_fcat_1188 ,
Homo sapiens	ENSG00000140350	3 retrocopies	retro_hsap_1479, retro_hsap_3117, retro_hsap_48,
Gorilla gorilla	ENSGGOG00000015417	1 retrocopy	retro_ggor_1134,
Nomascus leucogenys	ENSNLEG00000013347	2 retrocopies	retro_nleu_15, retro_nleu_2383,
Pongo abelii	ENSPPYG00000006595	2 retrocopies	retro_pabe_210, retro_pabe_2575,
Pan troglodytes	ENSPTRG00000007219	2 retrocopies	retro_ptro_2108, retro_ptro_758,
Rattus norvegicus	ENSRNOG00000045651	1 retrocopy	retro_rnor_1043,
Sarcophilus harrisii	ENSSHAG00000010906	1 retrocopy	retro_shar_540,
Tupaia belangeri	ENSTBEG00000016417	2 retrocopies	retro_tbel_4078, retro_tbel_4595,