RetrogeneDB ID: retro_fcat_1587

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D4:59095021..59095429(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

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

Sequence

>retro_fcat_1587
TCAGCTTCCAAGCTGTTTAATAATGAGGTCCTAAAGGCCCACAACAAGTACCAGCAGCAGCATGGTGTCCCCCTCAACTG
AAGCTCTGCAAGAAGCTTGATTGGGAGGCTCAGCATTATTCAGAGGCCCTGGTCAGCCCAAGGATGCTCAAGTGCAGCTC
AGAGTCCCATTGTGGCCAGTTCAGAGGTATATGCCTCCTGTGATCAGACAGGAAAAGAGATGGCTGATAGATGGTATGGT
GAAATCAAGAACTACAACTTTCAGCAGCCTGACTTCACCTCCAGGACTAGACCCTTCATAGCCATGGTATGGAAGAATAC
AAAGAAGATGGGAGTGGGGAAGCCACCTGCAAGTGGTGGGTCTTCCTTCCTGGTGGCCTGATACTTCCTGGCAGGGAATG
TCTTCAAC

Alignment

ORF - retro_fcat_1587 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.34 %
• Parental protein coverage: 91.39 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AASKQFNNEVLKAHNEYRQQHGV-PP-LKLCKKLNREAQQYSEALASTRILKHSPESSRGQCGE-NLAWA
          .ASK.FNNEVLKAHN.Y.QQHGV.PP.LKLCKKL..EAQ.YSEAL.S.R.LK.S.ES....CG......A
Retrocopy SASKLFNNEVLKAHNKYQQQHGV<PPQLKLCKKLDWEAQHYSEALVSPRMLKCSSES---HCGQ>SEVYA

Parental  SYDQTGKEVADRWYSEIKNYNFQQPGFTSGTGHFTAMVWKNTKKMGVGKASASDGSSFVVARYFPAGNVV
          S.DQTGKE.ADRWY.EIKNYNFQQP.FTS.T..F.AMVWKNTKKMGVGK..AS.GSSF.VA.YF.AGNV.
Retrocopy SCDQTGKEMADRWYGEIKNYNFQQPDFTSRTRPFIAMVWKNTKKMGVGKPPASGGSSFLVA*YFLAGNVF

Parental  N
          N
Retrocopy N

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	3.90 RPM
SRP017611_kidney	0.00 RPM	0.52 RPM
SRP017611_liver	0.00 RPM	0.40 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1587 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1587 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 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,