RetrogeneDB ID: retro_fcat_779

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B2:93643534..93643994(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PIR
• Ensembl ID: ENSFCAG00000010486
• Aliases: None
• Description: pirin (iron-binding nuclear protein) [Source:HGNC Symbol;Acc:30048]

Sequence

>retro_fcat_779
CTTCCTAAACCCATTAAGGATGGTGTGACAGCTGCTGTCATTTCTGGCAAAGTCCTGGGAATAAAGTAAAAGATTTATAC
TTGTACACCAACCATGTATTTGGACTTCAAATTGGACTATGGAGAAAAGCATCCTCAGCCTATTCCTAAAGGGTAGATAA
GCTTCATTTATACCATATCTGGAAATCTGTATTTTGGGCCTTGTGATGCACAACAAAAAATAGAACTTCATCACACAGCC
ATGCTGAGGGAAGGTGCCAGTGGCCCAGTAGAGAACAAGGATCCTGAGAGACGCCACTTCATCCTAATTGCTGGGAAGCC
AGTGAAGAGAAACAGTTGTCCAACATGGTCCATTTGTGATGAACAACACCACTGAAGAGATCTCTCAGGCCATTCTTGAT
TTCAGAAATGCAAAACATGGGTTTGAAAGAACCAAAACATGGAAATCAAAGATTGGAAAC

Alignment

ORF - retro_fcat_779 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.18 %
• Parental protein coverage: 52.41 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IPKPSKDGVTVAVISGEALGIKSKIYTRTPTLYLDFKLDHGAKHSQPIPKGWTSFIYTISGNVYIGPDDA
          .PKP.KDGVT.AVISG..LGIK.KIYT.TPT.YLDFKLD.G...................GN.Y.GP.DA
Retrocopy LPKPIKDGVTAAVISGKVLGIK*KIYTCTPTMYLDFKLDYGXXXXXXXXXXXXXXXXXXXGNLYFGPCDA

Parental  QQKIEPHHTAVLGEGDSVQVQNRDPERNHFILIAGEPL-GEPVVQHGPFVM-NTNEEISQAILDFRNAKN
          QQKIE.HHTA.L.EG.S..V.N.DPER.HFILIAG.P...E.VVQHGPFVM.NT.EEISQAILDFRNAK.
Retrocopy QQKIELHHTAMLREGASGPVENKDPERRHFILIAGKPV>RETVVQHGPFVMNNTTEEISQAILDFRNAKH

Parental  GFERAKTWKSKIGN
          GFER.KTWKSKIGN
Retrocopy GFERTKTWKSKIGN

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	4.82 RPM
SRP017611_kidney	0.00 RPM	9.28 RPM
SRP017611_liver	0.00 RPM	21.33 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_779 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_779 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009477	1 retrocopy	retro_btau_298,
Felis catus	ENSFCAG00000010486	1 retrocopy	retro_fcat_779 ,
Otolemur garnettii	ENSOGAG00000003304	2 retrocopies	retro_ogar_1073, retro_ogar_1118,
Tupaia belangeri	ENSTBEG00000008256	1 retrocopy	retro_tbel_1669,
Tursiops truncatus	ENSTTRG00000006770	1 retrocopy	retro_ttru_448,