RetrogeneDB ID: retro_fcat_955

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B4:46079906..46080414(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RBM8A
• Ensembl ID: ENSFCAG00000026379
• Aliases: None
• Description: RNA binding motif protein 8A [Source:HGNC Symbol;Acc:9905]

Sequence

>retro_fcat_955
CATGAGGCCAGGAGCGAGGATTTTGCCACGGATGAGGACAGGGAGGAAAGCATCCACAAACTGAAAGAAAAGGTGAAGAA
ATGGAAGGGACATGGTTTTGGCTTCAAAGAAGGGTCTCGAGCACGGATGTGGGAGGATTATGACAGTGTGGAACAGGATG
GCCATGAACCTGGACCACAGCACTCTATTGAAGGCTGAATTCTATTTGTCACTGGAGTCCAGGAGGAAGCCACCGGAGAA
GACACCCATGACAAATTTGGAGAGTGTGCGGAAATAAAAAAACATCCACCTCAACGTGGACAGGCATACAGGATACCTGA
AGGGGTATATTCTAGTTGAGTAAGAAACATTCAAGGAGACCCAGGTTGCTATGGAGGAACTCAGTGGCCAGCGTTTTATG
GGACAGCATTTATGCGCCACCAGTGTGGACTGGTGTTTTGTTCAAGGTCCACCCAAGGGCAAGGGGAGAGGTGGCCGAAG
ACGCAGCAGGAGTCCAGACTAGAGGCAG

Alignment

ORF - retro_fcat_955 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.29 %
• Parental protein coverage: 95.4 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HEAGGEDFAMDEDGDESIHKLKEKAKKRKGRGFGSEEGSRARMREDYDSVEQDGDEPGPQRSVEGWILFV
          HEA..EDFA.DED..ESIHKLKEK.KK.KG.GFG..EGSRARM.EDYDSVEQDG.EPGPQ.S.EG.ILFV
Retrocopy HEARSEDFATDEDREESIHKLKEKVKKWKGHGFGFKEGSRARMWEDYDSVEQDGHEPGPQHSIEG*ILFV

Parental  TGVHEEATEEDIHDKFAEYGEI-KNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPI--
          TGV.EEAT.ED.HDKF.E..EI.KNIHLN.DR.TGYLKGY.LVE.ET.KE.Q.AME.L.GQ..MGQ....
Retrocopy TGVQEEATGEDTHDKFGECAEI>KNIHLNVDRHTGYLKGYILVE*ETFKETQVAMEELSGQRFMGQHLCA

Parental  -SVDWCFVRGPPKGKRRGGRRRSRSPDRRR
          .SVDWCFV.GPPKGK.RGGRRRSRSPD.R.
Retrocopy TSVDWCFVQGPPKGKGRGGRRRSRSPD*RQ

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	48.20 RPM
SRP017611_kidney	0.00 RPM	33.70 RPM
SRP017611_liver	0.00 RPM	16.68 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_955 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_955 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 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000016021	1 retrocopy	retro_dnov_47,
Echinops telfairi	ENSETEG00000008411	1 retrocopy	retro_etel_1200,
Felis catus	ENSFCAG00000026379	1 retrocopy	retro_fcat_955 ,
Homo sapiens	ENSG00000131795	1 retrocopy	retro_hsap_1349,
Macropus eugenii	ENSMEUG00000016058	2 retrocopies	retro_meug_873, retro_meug_952,
Myotis lucifugus	ENSMLUG00000017436	2 retrocopies	retro_mluc_179, retro_mluc_1932,
Mus musculus	ENSMUSG00000038374	2 retrocopies	retro_mmus_137, retro_mmus_776,
Otolemur garnettii	ENSOGAG00000000202	2 retrocopies	retro_ogar_2694, retro_ogar_771,
Ochotona princeps	ENSOPRG00000013316	2 retrocopies	retro_opri_1146, retro_opri_659,
Rattus norvegicus	ENSRNOG00000021215	2 retrocopies	retro_rnor_1434, retro_rnor_1828,
Sorex araneus	ENSSARG00000013289	2 retrocopies	retro_sara_116, retro_sara_217,
Tupaia belangeri	ENSTBEG00000014947	2 retrocopies	retro_tbel_3548, retro_tbel_804,