RetrogeneDB ID: retro_fcat_337

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A2:97515632..97515983(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000029444
• Aliases: None
• Description: None

Sequence

>retro_fcat_337
ATGATGAGCAGGCGGCCAGGGAAAGTGCCCTGATAGTTTCTGCTGCACGAGGACTAGAGTCTTCCCCAGCCCAGGCTGAC
CGACCTGTGGCTTGTCCACTCTTGCTTCTTGGGTGACTACTTTGGCCTGATTGATAATGCGATCTGGCAGAGGCTGGTGG
TGTCGGCCAGTTTGCATTGCCAGCTTCTATATGTTACTTCCTTTGTTTTTATTGGATATGATCTTTTAAAACATCAAGAG
TATATATATGCTGTGAAGGACCATGGTATGTTTACATATGTAAAATCACATCCTGAGGATTTTCCTGAAAAAGATAAGAA
AACTTATGGTGAATTTCTTGAAGAATTCCAT

Alignment

ORF - retro_fcat_337 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.5 %
• Parental protein coverage: 97.5 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MMSGRPGRVPLQFLPDEARSLPPPKLTDPRLVYMGFLGYCSGLIDNAIRRRPVVTAGLHRQLLYVTSFVF
          MMS.RPG.VP..FL..E..SLP.P.LTD..LV...FLG...GLIDNAI..R.VV.A.LH.QLLYVTSFVF
Retrocopy MMSRRPGKVP**FLLHED*SLPQPRLTDLWLVHSCFLGDYFGLIDNAIWQRLVVSASLHCQLLYVTSFVF

Parental  IGYYLLKRQDYMYAVKDHDMFAYVKSHPEDFPEKDKKTYGDFLEEFH
          IGY.LLK.Q.Y.YAVKDH.MF.YVKSHPEDFPEKDKKTYG.FLEEFH
Retrocopy IGYDLLKHQEYIYAVKDHGMFTYVKSHPEDFPEKDKKTYGEFLEEFH

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	22.27 RPM
SRP017611_kidney	0.00 RPM	36.28 RPM
SRP017611_liver	0.00 RPM	30.12 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_337 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_337 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000029444	1 retrocopy	retro_fcat_337 ,
Mus musculus	ENSMUSG00000030647	2 retrocopies	retro_mmus_2851, retro_mmus_687,
Oryctolagus cuniculus	ENSOCUG00000000958	1 retrocopy	retro_ocun_628,
Tursiops truncatus	ENSTTRG00000007154	1 retrocopy	retro_ttru_1263,