RetrogeneDB ID: retro_fcat_757

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B2:62369636..62369983(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NOL12
• Ensembl ID: ENSFCAG00000004273
• Aliases: None
• Description: nucleolar protein 12 [Source:HGNC Symbol;Acc:28585]

Sequence

>retro_fcat_757
CAGCAGAAGCAGCTCTGGGAGGAGCACCATCAGGAATACTTGAAGCCCCTTGCGGAGAAAGAGGCGGCTCTGGAGGAGGC
AGACAAACTAGACAGGCTAGTGACAGCAAACACGGAGTTGGTGCAGCATTGATCACCCCAACCACACAGTCACTGTGACC
ACCATCAGGGACCTGGACCTCTAGGGGACCTGGCTGCTTGGACTGCCCCTACCTGAGCAAGGGTTTGGGTATGGGTCTGA
GGAAGAGGTTGTCATCCATGGAGAAGCTGACCAGAGCCTTACCCAGGAAGTCCAGAGATCCCCTGCTATCCCAGCAGATC
TCCACTCTCACACCACTGAGCCTTCAC

Alignment

ORF - retro_fcat_757 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.92 %
• Parental protein coverage: 51.82 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  EQKKLREERHQEYLKLLAEREEALEEADELDRLVTAKTESVQY-DHPNHTVTVTTISDLDLSGARLLGLP
          .QK.L.EE.HQEYLK.LAE.E.ALEEAD.LDRLVTA.TE.VQ..DHPNHTVTVTTI.DLDL.G..LLGLP
Retrocopy QQKQLWEEHHQEYLKPLAEKEAALEEADKLDRLVTANTELVQH>DHPNHTVTVTTIRDLDL*GTWLLGLP

Parental  TPEQAAGHGSEEEA-SSTEKLTRALPRKSRDPLLSQRISALT-ASLH
          .PEQ..G.GSEEE..SS.EKLTRALPRKSRDPLLSQ.IS.LT..SLH
Retrocopy LPEQGFGYGSEEEV>SSMEKLTRALPRKSRDPLLSQQISTLTPLSLH

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	3.21 RPM
SRP017611_kidney	0.00 RPM	4.43 RPM
SRP017611_liver	0.00 RPM	4.14 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_757 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_757 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 9 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010139	1 retrocopy	retro_amel_672,
Callithrix jacchus	ENSCJAG00000012487	1 retrocopy	retro_cjac_538,
Equus caballus	ENSECAG00000011050	1 retrocopy	retro_ecab_126,
Felis catus	ENSFCAG00000004273	1 retrocopy	retro_fcat_757 ,
Oryctolagus cuniculus	ENSOCUG00000017013	1 retrocopy	retro_ocun_1698,
Otolemur garnettii	ENSOGAG00000008255	1 retrocopy	retro_ogar_2914,
Pteropus vampyrus	ENSPVAG00000010097	1 retrocopy	retro_pvam_1022,
Tupaia belangeri	ENSTBEG00000009745	1 retrocopy	retro_tbel_3215,
Tursiops truncatus	ENSTTRG00000004799	1 retrocopy	retro_ttru_1165,