RetrogeneDB ID: retro_fcat_824

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B3:34422967..34423466(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZMAT5
• Ensembl ID: ENSFCAG00000004251
• Aliases: None
• Description: zinc finger, matrin-type 5 [Source:HGNC Symbol;Acc:28046]

Sequence

>retro_fcat_824
ATGGGGAAGCATTACTTCTGTGACTACGGCAACCACTCCTTCCAGGACAAGCTCCACACCCACAAGAAACACCTGAATGG
GCTGCAGCACCTCAAAGCCAAGAACGTCTGGTATGACCTGTTCTAAGATGCGTCTGCCATCTTGTTAGATGAACAGAAGA
AGCGGCCCCGTGGGAAGTTTCTACTGACAGGCCAGTGTGACTTTGGCTCCAAATGCAGATTTCCCCACATGTCACAGACA
GACCTGCAAGAGCAGAGTATCCAGGTGGAGAAGGAGACGTGGGCCAGGAAGTGGCCAATAACTGTCCTCAAGCTCCCTGA
GGACCATCTAGAAGACTGGTTGGAAAAGAGCCAATCGGCTGAGCTCAGCCCGAAGCAGCAAGGACGAACTCATGAGAACC
ACCGTCTTCCACTATCCTGGAGGCTAGCCACCAGTCCCAGAGCTGTCTGCATTCCTGCGGGCAGCCCCACCCAGGGCGTG
GTCCCTGAAGCCCAGAGTC

Alignment

ORF - retro_fcat_824 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.07 %
• Parental protein coverage: 98.24 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MGKHYFCDYCNRSFQDNLHNRKKHLNGLQHLKAKKVWYDMFRDAAAILLDEQNKRPCRKFLLTGQCDFGS
          MGKHYFCDY.N.SFQD.LH..KKHLNGLQHLKAK.VWYD.F.DA.AILLDEQ.KRP..KFLLTGQCDFGS
Retrocopy MGKHYFCDYGNHSFQDKLHTHKKHLNGLQHLKAKNVWYDLF*DASAILLDEQKKRPRGKFLLTGQCDFGS

Parental  NCRFSHMSERDLQELSIQVEEERRAREWPLDVVELPEGHLEDWLEKRAKRLSSAPSSRAEPMRN-TIFQY
          .CRF.HMS..DLQE.SIQVE.E..AR.WP..V..LPE.HLEDWLEK........P........N.T.F.Y
Retrocopy KCRFPHMSQTDLQEQSIQVEKETWARKWPITVLKLPEDHLEDWLEK-SQSAELSPKQQGRTHEN>TVFHY

Parental  PIGWPPVQELPPSLRAPPPGGWPLQPSV
          P.G.PPV.EL...LRA.PP..W.L.P.V
Retrocopy PGG*PPVPELSAFLRAAPPRAWSLKPRV

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	0.11 RPM	3.90 RPM
SRP017611_kidney	0.00 RPM	5.87 RPM
SRP017611_liver	0.00 RPM	7.28 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_824 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_824 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.

---

Parental genes homology:

Parental genes homology involve 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000008059	1 retrocopy	retro_amel_866,
Canis familiaris	ENSCAFG00000012343	2 retrocopies	retro_cfam_1130, retro_cfam_1424,
Cavia porcellus	ENSCPOG00000020994	1 retrocopy	retro_cpor_1043,
Echinops telfairi	ENSETEG00000003789	2 retrocopies	retro_etel_2098, retro_etel_421,
Felis catus	ENSFCAG00000004251	1 retrocopy	retro_fcat_824 ,
Myotis lucifugus	ENSMLUG00000017398	1 retrocopy	retro_mluc_568,
Mustela putorius furo	ENSMPUG00000013253	1 retrocopy	retro_mputfur_875,