RetrogeneDB ID: retro_fcat_1843

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: F2:30810904..30811539(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NUDT21
• Ensembl ID: ENSFCAG00000008669
• Aliases: None
• Description: nudix (nucleoside diphosphate linked moiety X)-type motif 21 [Source:HGNC Symbol;Acc:13870]

Sequence

>retro_fcat_1843
GGGATCAACAAGTTTGGCAACAAGTCCGTCCAACAGACCAAGCCCCTCACCCTGGAGTTCACCATCAACATGTACCCTCT
TATAAATTGTATTTATGGTACAAAGGAGTCCCTGTATGAGAAGGCCAGCTCCATCGCAGCCACATTTCAGCACATGAGGG
AGGAATCTGATAAAATCGAATGAGAAGGACTATAGAAGGGGCCCTGATTGTACATGAGCACCTGCTACTGCACGTGTTCC
TGCTACAGCTGGCAACAACTTTCTTCACATTACCTGGTGGTAAACTTAACCCAGGAGAAGATGAAGTTGAAGAACTCAAA
TGCTTAATGACAAGGATACCGGGTTATCAAAATGTAGTCCTGCAAGATGGGGTCATTGATGACTGCATTGGTAACGGGTG
GAGGCAAAATTTTGAACCTCCTTAGTATTCATATATTCTTCCACATATTAGAAAACCTAAGGAACGTGATGGAGCTGTTT
TGGTTCAACTTCAAGAGAAAGCCTTATTTGCAGTCCCTAAAAATTACAAGCTGGTAGCTGCACCATTGTTTAAACTGTAC
AACAGTGCTCTAGGTTATGGACCCATCATTTCTAGTCTCCCTCCGTTTCTAAGCAGGTTCAATTTTATATACAAT

Alignment

ORF - retro_fcat_1843 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.59 %
• Parental protein coverage: 93.39 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GVNQFGNKYIQQTKPLTLERTINLYPLTNYTFGTKEPLYEKDSSVAARFQRMREEFDKIG-MRRTVEGVL
          G.N.FGNK..QQTKPLTLE.TIN.YPL.N...GTKE.LYEK.SS.AA.FQ.MREE.DKI..MRRT.EG.L
Retrocopy GINKFGNKSVQQTKPLTLEFTINMYPLINCIYGTKESLYEKASSIAATFQHMREESDKIE<MRRTIEGAL

Parental  IVHEHRLPHVLLLQLGTTFFKLPGGELNPGEDEVEGLKRLMTEILGRQDGVLQDWVIDDCIGNWWRPNFE
          IVHEH.L.HV.LLQL.TTFF.LPGG.LNPGEDEVE.LK.LMT.I.G.Q..VLQD.VIDDCIGN.WR.NFE
Retrocopy IVHEHLLLHVFLLQLATTFFTLPGGKLNPGEDEVEELKCLMTRIPGYQNVVLQDGVIDDCIGNGWRQNFE

Parental  PPQYPYIPAHITKPKEHKKLFLVQLQEKALFAVPKNYKLVAAPLFELYDNAPGYGPIISSLPQLLSRFNF
          PP.Y.YI..HI.KPKE.....LVQLQEKALFAVPKNYKLVAAPLF.LY..A.GYGPIISSLP..LSRFNF
Retrocopy PP*YSYILPHIRKPKERDGAVLVQLQEKALFAVPKNYKLVAAPLFKLYNSALGYGPIISSLPPFLSRFNF

Parental  IYN
          IYN
Retrocopy IYN

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	27.32 RPM
SRP017611_kidney	0.00 RPM	22.26 RPM
SRP017611_liver	0.00 RPM	18.10 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1843 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1843 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 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000012724	3 retrocopies	retro_cjac_1121, retro_cjac_2211, retro_cjac_4100,
Cavia porcellus	ENSCPOG00000003705	1 retrocopy	retro_cpor_1054,
Felis catus	ENSFCAG00000008669	1 retrocopy	retro_fcat_1843 ,
Loxodonta africana	ENSLAFG00000028465	1 retrocopy	retro_lafr_610,
Mustela putorius furo	ENSMPUG00000003451	1 retrocopy	retro_mputfur_158,
Mus musculus	ENSMUSG00000031754	3 retrocopies	retro_mmus_1949, retro_mmus_1950, retro_mmus_2142,
Oryctolagus cuniculus	ENSOCUG00000017224	2 retrocopies	retro_ocun_154, retro_ocun_87,
Otolemur garnettii	ENSOGAG00000014888	2 retrocopies	retro_ogar_1450, retro_ogar_630,
Ochotona princeps	ENSOPRG00000006689	1 retrocopy	retro_opri_637,
Sarcophilus harrisii	ENSSHAG00000009651	1 retrocopy	retro_shar_469,
Sus scrofa	ENSSSCG00000029848	2 retrocopies	retro_sscr_117, retro_sscr_185,
Tursiops truncatus	ENSTTRG00000013545	1 retrocopy	retro_ttru_1087,