RetrogeneDB ID: retro_fcat_1582

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D4:46441547..46441871(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE2E2
• Ensembl ID: ENSFCAG00000007748
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2E 2 [Source:HGNC Symbol;Acc:12478]

Sequence

>retro_fcat_1582
ATGTCTGGGGACAGGCAGAGATCTGATGATGAGGGCTGCAGCACCAGCCATGGTGGTTCAGATGCGGACCAGTGAGAGCC
AGCCCCTCTAAAGCCTGAAGAAGAAAGAAAACCTTCTGCCACCCAGCAGAAGAAACACCCCAAAGTCTCTAGCAAAACCA
CTGCGAAGTTATCCACTAGTGCTGAAAGAATTCAGAGTGAACCTGGCCGAAAGAGCCCTTGATTCTCCTAACTGTGGCAT
TGGGCCTAAGGGAGACAACATTATGAACGGAGACCGACTACACTTGGCCCACCAGGTTCTGAGTTTTTTCCGGACATCTC
ATTT

Alignment

ORF - retro_fcat_1582 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.86 %
• Parental protein coverage: 52.24 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSTEAQRVDDSP-STSGGSSDGDQRESVQQEPEREQ---VQPKKKEGKISSKTAAKLSTSAKRIQKE-LA
          MS...QR.DD...STS.G.SD.DQ.E.....PE.E........KK..K.SSKT.AKLSTSA.RIQ.E.LA
Retrocopy MSGDRQRSDDEGCSTSHGGSDADQ*EPAPLKPEEERKPSATQQKKHPKVSSKTTAKLSTSAERIQSE>LA

Parental  EITLDPPPNCSHGPKGDNI-YEWRSTILGPPGSVYEGGVFF
          E..LD..PNC..GPKGDNI.YE.R.T.LGPPGS.......F
Retrocopy ERALD-SPNCGIGPKGDNI<YERRPTTLGPPGSEFFPDISF

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	7.80 RPM
SRP017611_kidney	0.00 RPM	4.02 RPM
SRP017611_liver	0.00 RPM	5.76 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1582 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1582 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 12 parental genes, and 26 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000010341	2 retrocopies	retro_chof_1304, retro_chof_674,
Ciona intestinalis	ENSCING00000006860	1 retrocopy	retro_cint_33,
Dasypus novemcinctus	ENSDNOG00000005448	7 retrocopies	retro_dnov_1217, retro_dnov_1281, retro_dnov_1360, retro_dnov_156, retro_dnov_2026, retro_dnov_2508, retro_dnov_424,
Felis catus	ENSFCAG00000007748	2 retrocopies	retro_fcat_1582 , retro_fcat_913,
Felis catus	ENSFCAG00000008008	1 retrocopy	retro_fcat_369,
Felis catus	ENSFCAG00000024719	1 retrocopy	retro_fcat_623,
Felis catus	ENSFCAG00000024918	2 retrocopies	retro_fcat_1106, retro_fcat_785,
Microcebus murinus	ENSMICG00000016799	3 retrocopies	retro_mmur_1075, retro_mmur_15, retro_mmur_419,
Myotis lucifugus	ENSMLUG00000025144	1 retrocopy	retro_mluc_712,
Ochotona princeps	ENSOPRG00000010615	2 retrocopies	retro_opri_329, retro_opri_788,
Tursiops truncatus	ENSTTRG00000005156	1 retrocopy	retro_ttru_1075,
Vicugna pacos	ENSVPAG00000007007	3 retrocopies	retro_vpac_108, retro_vpac_315, retro_vpac_425,