RetrogeneDB ID: retro_fcat_872

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B3:133220724..133221014(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LAMTOR2
• Ensembl ID: ENSFCAG00000028596
• Aliases: None
• Description: late endosomal/lysosomal adaptor, MAPK and MTOR activator 2 [Source:HGNC Symbol;Acc:29796]

Sequence

>retro_fcat_872
AACGAGGCAACTCTGGGTGGCTGCTCGGGTTACAGGGATGCTGATATCTGGGTCACCACGGCTATCACCATAAAATCTGG
GCCACTTACAACTGGAACAGAAACCACATATTTAATGAAGACAATCTCAAATTCATCCTCATGGACTACACAGAGGGCCG
TGTAGCCACCACTCGAGGGGCCAACCTAGCTCCGTGTATATTCCAAGAGAGCGTGGGCTTTGGAACGCTCAAGGCCAAAG
CCCAGGCCTTGATTCAGTAGCTGCGGGAGCCCTTCACCCAAACAGTGGCA

Alignment

ORF - retro_fcat_872 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.62 %
• Parental protein coverage: 78.4 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NEGSLLAYSGYGDTDARVTAAIA-SNIWAAYDRNGNQAFNEDNLKFILMDCMEGRVAITRVANLLLCMYA
          NE..L...SGY.D.D..VT.AI....IWA.Y..N.N..FNEDNLKFILMD..EGRVA.TR.ANL..C...
Retrocopy NEATLGGCSGYRDADIWVTTAIT<HKIWATYNWNRNHIFNEDNLKFILMDYTEGRVATTRGANLAPCIF-

Parental  KETVGFGMLKAKAQALVQYLEEPLTQVAA
          .E.VGFG.LKAKAQAL.Q.L.EP.TQ..A
Retrocopy QESVGFGTLKAKAQALIQ*LREPFTQTVA

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	15.49 RPM
SRP017611_kidney	0.00 RPM	21.23 RPM
SRP017611_liver	0.00 RPM	7.48 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_872 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_872 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 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000009193	1 retrocopy	retro_ecab_629,
Felis catus	ENSFCAG00000028596	1 retrocopy	retro_fcat_872 ,
Myotis lucifugus	ENSMLUG00000023871	1 retrocopy	retro_mluc_237,
Mus musculus	ENSMUSG00000028062	1 retrocopy	retro_mmus_878,
Otolemur garnettii	ENSOGAG00000016953	2 retrocopies	retro_ogar_2919, retro_ogar_910,
Pteropus vampyrus	ENSPVAG00000010328	1 retrocopy	retro_pvam_748,
Rattus norvegicus	ENSRNOG00000019908	3 retrocopies	retro_rnor_1037, retro_rnor_2493, retro_rnor_847,
Tursiops truncatus	ENSTTRG00000013344	1 retrocopy	retro_ttru_1782,