RetrogeneDB ID: retro_fcat_1347

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: C2:67177106..67177976(-)
• Located in intron of: ENSFCAG00000018226

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNH1
• Ensembl ID: ENSFCAG00000007585
• Aliases: None
• Description: ribonuclease/angiogenin inhibitor 1 [Source:HGNC Symbol;Acc:10074]

Sequence

>retro_fcat_1347
TTCTGCAACCTGCGAGTGGCCAGCTGTGAGACCCTAGCCTTGGTGCTCAAGGCCAAGCAGCACTCCAAGGAGCTCACGGT
GAGCAATGACGACATCTGCCAGGACAGCCCCAGGGCACTGTGCCAGGGCCTCATGGACTCCACCTGCTAGCTGGAGGCGC
TGATGATGGAGAACTGTGGTCTCACATAGGCCAGTGGTAAGGATCTGTGTGGCATCATGGCCTCCAAGGCTTCAATGAAG
GAGCTGGAACTGGGTGACAAGCTGGGCAACCTGGGCATTGTCCAGCTGTGCCCCAGGCTGCTACGCCCCAGCTCTTGGCT
CAGGGCCCTATGGCTCTGGGACTGTGACATCACCACCAAGAGCTGCAGAGACTGGTGCCATGTCCTTAGGGCCAAGGTAA
ACCTGAAGAGCTGAGCCTTCTGGGCAATGCACTGGAGGACAGGGTGCCTGGCTGCTGTGTGAGAGCCTGTAAGAGCCTAG
CTTCCAGCTGCATTCTTCATGGGTAAAGTCCTACAGCTTACAGCTATCTGCTGCCACCACTTCAACATGATGCTAACTCA
AAACAGAATCTTGTAGAGCTGTAGATGAGCAACAACAAGCTGGGTACTCTGGCATTCAGGAACTATGCCAGGTCATGAGC
CAGCCTGGCACCATGCTGTGGGTGCCTTAGCTGGGGAATGCGACTTGACTGAGAGTGGCTACTGCAGTCTGGCCTCCCAC
CCACTGGCCAACCACAGCCCATGCAAGTGGGACCTCAGGCAACAACTACATGTATGACCCAGGCATCTAGCAGCTGATTA
GAGCCTCCAGAAGCTCAGCTGTGCCTTGAAACAGCTGGTCCTGTACGACACCTACTGGATGTAGGAGACA

Alignment

ORF - retro_fcat_1347 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.46 %
• Parental protein coverage: 56.02 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 8

Retrocopy - Parental Gene Alignment:

Parental  YCNLTAASCEPLAAVLRAWRHVKELVVSNNDIGEAGVQALCRGLVDSACQLETLKLENCGLTPASCKDLC
          .CNL..ASCE.LA.VL.A..H.KEL.VSN.DI......ALC.GL.DS.C.LE.L..ENCGLT.AS.KDLC
Retrocopy FCNLRVASCETLALVLKAKQHSKELTVSNDDICQDSPRALCQGLMDSTC*LEALMMENCGLT*ASGKDLC

Parental  GVVASKASLQELDLGDNKLGDQGIATLCPALLHPSSRLRVLWLWDCDITTTGCRDLCQVLRAKESLK-EL
          G..ASKAS..EL.LGD.KLG..GI..LCP.LL.PSS.LR.LWLWDCDITT..CRD.C.VLRAK..LK.EL
Retrocopy GIMASKASMKELELGD-KLGNLGIVQLCPRLLRPSSWLRALWLWDCDITTKSCRDWCHVLRAKVNLK<EL

Parental  SLAGNAL-GDEGARLLCESLLEPGCQLQSLWVKSCG-LTAVCCPHVSAMLTHNK-HLVELQMSDNKLGD-
          SL.GNAL.G..GA.LLCESL.EP..QL.S.WVKS...LTA.CC.H...MLT.N...LVEL.MS.NKLG..
Retrocopy SLLGNAL<GGQGAWLLCESL*EPSFQLHSSWVKSYS<LTAICCHHFNMMLTQNR<NLVEL*MSNNKLGT<

Parental  SGVQELCQGLSQPSAMLRVLWL-GDCDVANGGCNSLASLLVVNRSLRELDL-SNNCMDDRGILQLME-SL
          SG.QELCQ..SQP..ML.V..L.G.CD....G..SLAS....N.S....DL..NN.M.D.GI.QL...SL
Retrocopy SGIQELCQVMSQPGTMLWVP*L<GECDLTESGYCSLASHPLANHSPCKWDL>GNNYMYDPGI*QLIR<SL

Parental  ERPDCALEQLVLYDIYWTQQT
          ....CAL.QLVLYD.YW...T
Retrocopy QKLSCALKQLVLYDTYWM*ET

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	13.08 RPM
SRP017611_kidney	0.00 RPM	65.96 RPM
SRP017611_liver	0.00 RPM	27.60 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1347 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1347 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010466	1 retrocopy	retro_amel_1537,
Felis catus	ENSFCAG00000007585	1 retrocopy	retro_fcat_1347 ,
Mus musculus	ENSMUSG00000038650	2 retrocopies	retro_mmus_1727, retro_mmus_1778,