RetrogeneDB ID: retro_fcat_115

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: F2:33587460..33587925(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000023064
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000012762
• Aliases: None
• Description: None

Sequence

>retro_fcat_115
ATGGGCAAGTCAGCTTCCAAGCAGTTTAATAATGAGGTCCTGAAGGCCCACAACGAGTACCGGCAGCAGCACGGCGTCCC
CCCACTGAAGCTCTGCAAGAAGCTGAACCGGGAGGCCCAGCAGTATTCGGAGGCCCTGGCCAGCACGAGGATCCTCAAGC
ACAGCCCGGAGTCCAGTCGCGGCCAGCGTGGAGAGAACCTGGCATGGGCCTCCTACGATCAGACAGGAAAGGAGGTGGCT
GATAGATGGTACAGTGAAATCAAGAACTACAACTTCCAGCAGCCCGGCTTCACTTCTGGGACTGGACACTTCACGGCCAT
GGTGTGGAAGAATACGAAGAAGATGGGAGTAGGGAAGGCATCTGCAAGCAACGGGTCTTACTTCGTGGTGGCCCGATACT
TCCCGGCAGGGAATGTCGTCAACCAGGGCTTCTTTGAAGAAAATGTCCTGCCTCCAAAGAAGTAA

Alignment

ORF - retro_fcat_115 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.35 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AASKQFNNEVLKAHNEYRQQHGVPPLKLCKKLNREAQQYSEALASTRILKHSPESSRGQCGENLAWASYD
          .ASKQFNNEVLKAHNEYRQQHGVPPLKLCKKLNREAQQYSEALASTRILKHSPESSRGQ.GENLAWASYD
Retrocopy SASKQFNNEVLKAHNEYRQQHGVPPLKLCKKLNREAQQYSEALASTRILKHSPESSRGQRGENLAWASYD

Parental  QTGKEVADRWYSEIKNYNFQQPGFTSGTGHFTAMVWKNTKKMGVGKASASDGSSFVVARYFPAGNVVNQG
          QTGKEVADRWYSEIKNYNFQQPGFTSGTGHFTAMVWKNTKKMGVGKASAS.GS.FVVARYFPAGNVVNQG
Retrocopy QTGKEVADRWYSEIKNYNFQQPGFTSGTGHFTAMVWKNTKKMGVGKASASNGSYFVVARYFPAGNVVNQG

Parental  FFEENVLPPKK
          FFEENVLPPKK
Retrocopy FFEENVLPPKK

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	3.90 RPM
SRP017611_kidney	0.31 RPM	0.52 RPM
SRP017611_liver	0.20 RPM	0.40 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_115 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_115 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 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000030686	1 retrocopy	retro_cfam_428,
Dasypus novemcinctus	ENSDNOG00000008950	1 retrocopy	retro_dnov_2040,
Dipodomys ordii	ENSDORG00000012831	1 retrocopy	retro_dord_342,
Felis catus	ENSFCAG00000012762	2 retrocopies	retro_fcat_115 , retro_fcat_1587,
Microcebus murinus	ENSMICG00000017673	1 retrocopy	retro_mmur_1525,
Myotis lucifugus	ENSMLUG00000011791	2 retrocopies	retro_mluc_1145, retro_mluc_475,
Mus musculus	ENSMUSG00000028480	1 retrocopy	retro_mmus_2458,
Rattus norvegicus	ENSRNOG00000014838	1 retrocopy	retro_rnor_2217,
Tupaia belangeri	ENSTBEG00000009276	2 retrocopies	retro_tbel_1646, retro_tbel_4682,