RetrogeneDB ID: retro_fcat_495

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A3:92236103..92236918(-)
• Located in intron of: ENSFCAG00000008756

Retrocopy information

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

Parental gene information

• Parental gene symbol: AURKA
• Ensembl ID: ENSFCAG00000024493
• Aliases: None
• Description: aurora kinase A [Source:HGNC Symbol;Acc:11393]

Sequence

>retro_fcat_495
GAAAAACAATGGGCTTTGGAAGATTTTGATTTGGCCGCCTGCTGGGTAAAAGAAACTTTCCCTAAATGTTTATTTGGGGA
AAGAAAAAGCAAGTTTATCCTGGCTCTTAAAGTATTATTTAAAGCTCAACTGAAGAAGTAAGAGGTAAGCATCAGTTGAG
AAGTACAAATCCAATCCCACCTTAGATATCCAAGTATTTTCAGACTATATGGTTACTCCCATGATGCCACCAGAATTTAC
CTAATTCTAGAATATGTACCCCTTGGACTTGTCTATGGAGAACCTCACGAACTGTCAGTCTGATGAGCAGAGGACTGCAA
CTCTTAGACCACAGGATTCGCAAATGCCCTGTCTTACCATAGTTTAAAGAGAGTTTTCATGGAGACATTAAACCAGAGAA
CCTGCTCCTTAAATGAACTGAGAATTTAAGATTACGGTATATTACGGTATATGGCCTCATCCTCCAGAACCACCCCCTGC
GGCACCATGGACTACTTGCCCCCTGAGATGATTAAAGGCTGAATGCATGCTGAGAAGGTGAATCTCTGGAGCCCTGGGGT
TCTTTGCTATAAATTTCTAGTTGGGAAGCCTCCTGCTGAGACAAACACATACCAAGAGATCTATAAAAAACAACAACCGG
TGAGCTGAATTCACATTCCCTGACTTTGTACCAGGGGGAGTCAGGGACTTCTTTTCTAGGCAGCTAAAGCATAACCCTAG
CCAAAGCCTGATTCTCAAAAAAGTACCTGAACACTCCTGGATCACAGCAAATTCATCAAAACCATCTAGTAGCCAAAAAA
AGCAAAGATTCAACT

Alignment

ORF - retro_fcat_495 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.56 %
• Parental protein coverage: 70.59 %
• Number of stop codons detected: 9
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KRQWALEDFEIGRPLGKGKFGNVYLAREKQSKFILALKVLFKAQLEKAGVEHQLRREVEIQSHLRHPNIL
          ..QWALEDF.......K..F....L..E..SKFILALKVLFKAQL.K..V......EV.IQSHLR.P.I.
Retrocopy EKQWALEDFDLAACWVKETFPKC-LFGERKSKFILALKVLFKAQLKK*EVS--IS*EVQIQSHLRYPSIF

Parental  RLYGYFHDATRVYLILEYAPLGAVYRELQKLSKFDEQRTATYITELADALSYCHSKRVIHRDIKPENLLL
          RLYGY.HDATR.YLILEY.PLG.VY.E...LS...........T..A.ALSY...KRV............
Retrocopy RLYGYSHDATRIYLILEYVPLGLVYGEPHELSV**AEDCNS*TTGFANALSYHSLKRVFMETLNQRTC--

Parental  GSAGELKIADFGWSVHAPSSRRTTLCGTLDYLPPEMIEGRMHDEKVDLWSLGVLCYEFLVGKPPFEASTY
          .S..EL.I.D.G......SS.RTT.CGT.DYLPPEMI.G.MH.EKV.LWS.GVLCY.FLVGKPP.E..TY
Retrocopy -SLNELRI*DYGILRYMASSSRTTPCGTMDYLPPEMIKG*MHAEKVNLWSPGVLCYKFLVGKPPAETNTY

Parental  QETYKRISRVE-FTFPDFVPEGARDLI-SRLLKHNPSQRPTLKEVLEHPWVTANSSKPSGSQ-KSKEST
          QE.YK....V.....P.....G...L..SR.LKHNPSQ...LK.V.EH.W.TANSSKPS.SQ.KSK.ST
Retrocopy QEIYKKQQPVS*IHIP*LCTRGSQGLL>SRQLKHNPSQSLILKKVPEHSWITANSSKPSSSQ>KSKDST

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	1.49 RPM
SRP017611_kidney	0.00 RPM	0.93 RPM
SRP017611_liver	0.10 RPM	1.82 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_495 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_495 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 18 parental genes, and 32 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000029331	3 retrocopies	retro_cfam_1027, retro_cfam_257, retro_cfam_764,
Choloepus hoffmanni	ENSCHOG00000005976	8 retrocopies	retro_chof_1302, retro_chof_1575, retro_chof_1709, retro_chof_2213, retro_chof_2389, retro_chof_259, retro_chof_565, retro_chof_764,
Cavia porcellus	ENSCPOG00000006633	1 retrocopy	retro_cpor_106,
Felis catus	ENSFCAG00000024493	1 retrocopy	retro_fcat_495 ,
Homo sapiens	ENSG00000087586	1 retrocopy	retro_hsap_510,
Gorilla gorilla	ENSGGOG00000007197	1 retrocopy	retro_ggor_470,
Myotis lucifugus	ENSMLUG00000007925	1 retrocopy	retro_mluc_1931,
Macaca mulatta	ENSMMUG00000000070	1 retrocopy	retro_mmul_431,
Mus musculus	ENSMUSG00000027496	1 retrocopy	retro_mmus_2825,
Nomascus leucogenys	ENSNLEG00000007029	1 retrocopy	retro_nleu_1553,
Otolemur garnettii	ENSOGAG00000004441	3 retrocopies	retro_ogar_2805, retro_ogar_3440, retro_ogar_980,
Pongo abelii	ENSPPYG00000011148	1 retrocopy	retro_pabe_231,
Pan troglodytes	ENSPTRG00000013646	1 retrocopy	retro_ptro_381,
Rattus norvegicus	ENSRNOG00000004479	2 retrocopies	retro_rnor_664, retro_rnor_670,
Sus scrofa	ENSSSCG00000007493	1 retrocopy	retro_sscr_936,
Ictidomys tridecemlineatus	ENSSTOG00000011958	2 retrocopies	retro_itri_366, retro_itri_772,
Tupaia belangeri	ENSTBEG00000013284	2 retrocopies	retro_tbel_1137, retro_tbel_2604,
Tarsius syrichta	ENSTSYG00000009221	1 retrocopy	retro_tsyr_378,