RetrogeneDB ID: retro_fcat_1386

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D1:4781532..4782179(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MSI2
• Ensembl ID: ENSFCAG00000006840
• Aliases: None
• Description: musashi RNA-binding protein 2 [Source:HGNC Symbol;Acc:18585]

Sequence

>retro_fcat_1386
TTGAGCTGGCAGACGTCACCAGATAGCCTTAGAGACTATTTTAGCAAATTTGGAGACATTAGAGAATGTATGGTCATGAG
AGATCCCACTACGAAATGCTCTAGAGTCTACAGTTTCGTCACATTCGCAGACCCAGCAAGTGTAGACGAAGTATTAAGTC
AGCCCCACCATGAGTTCGATTCCAAGATGATCGACCCCAAAGTTGCATTTCCTCGTGGGGCACAACCCAAGATGGTCACA
AGATCAAAGAAGATATTCGTAGGCGGATTATCTGCAAACATGGTGGTGGAGGACGTAAAACAGTACTTTGAACAGTTTGG
CAAGATGGAGGATGCAATGCTGATATTTGATAAAATTACCAAAAGGCTCAGAGGTTTGGCTTTGTTACGTGTGAGAATGA
AGATGTGGAAAAAGTCTGTGGGATTCATTTCCATGAAATCAATAATAAAATGGTGGAATATAAGAAAGCTCAGCCTAGGG
AAGTTATGTTCCCACTGGGGACAAGAGGCCAGGCCTGGGGACTGCCTTACACCATAGATGCATTCATGCTTGGCATGGGA
ATGCTAGGCTACCCCAACTTTGTGACAATCTATGGCCGTGGCTACCCTGTATTTGCTCCTAGCTATGACTATCAGTTCCC
AGACTAT

Alignment

ORF - retro_fcat_1386 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.03 %
• Parental protein coverage: 71.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LSLSLSTDSLRDYFSKFGEIRECMVMRDPTTKRSRGFGFVTFADPASVDKVLGQPHHELDSKTIDPKVAF
          LS...S.DSLRDYFSKFG.IRECMVMRDPTTK.SR...FVTFADPASVD.VL.QPHHE.DSK.IDPKVAF
Retrocopy LSWQTSPDSLRDYFSKFGDIRECMVMRDPTTKCSRVYSFVTFADPASVDEVLSQPHHEFDSKMIDPKVAF

Parental  PRRAQPKMVTRTKKIFVGGLSANTVVEDVKQYFEQFGKVEDAMLMFDKTTNRHRG-FGFVTFENEDVVEK
          PR.AQPKMVTR.KKIFVGGLSAN.VVEDVKQYFEQFGK.EDAML.FDK.T.R.RG.FGFVT.ENED.VEK
Retrocopy PRGAQPKMVTRSKKIFVGGLSANMVVEDVKQYFEQFGKMEDAMLIFDKITKRLRG<FGFVTCENED-VEK

Parental  VCEIHFHEINNKMVECKKAQPKEVMFPPGTRGRARGLPYTMDAFMLGMGMLGYPNFVATYGRGYPGFAPS
          VC.IHFHEINNKMVE.KKAQP.EVMFP.GTRG.A.GLPYT.DAFMLGMGMLGYPNFV..YGRGYP.FAPS
Retrocopy VCGIHFHEINNKMVEYKKAQPREVMFPLGTRGQAWGLPYTIDAFMLGMGMLGYPNFVTIYGRGYPVFAPS

Parental  YGYQFPGF
          Y.YQFP..
Retrocopy YDYQFPDY

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	0.34 RPM	23.64 RPM
SRP017611_kidney	0.10 RPM	14.02 RPM
SRP017611_liver	0.00 RPM	7.68 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1386 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1386 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000014501	1 retrocopy	retro_dnov_1423,
Felis catus	ENSFCAG00000006840	1 retrocopy	retro_fcat_1386 ,