RetrogeneDB ID: retro_fcat_1621

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D4:39339441..39339815(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000003249
• Aliases: None
• Description: None

Sequence

>retro_fcat_1621
CAGGGCAAAGGGCGCAGGCTCTTTGGTATCTCTGCCCTGATTGTGAGTTTTGACTTAGACGGCATCCCCAGACTCTATCA
GACTGACCCTTCGGGGGACGTACTGCGCCTGGAAAGTCACGGCTATAGGCTGGGGTGCCATAGGTGAGAGGATTTCCACA
GAAGAATTACACCCACAAAGCCATAGAGACAGAGGAGCTGACCTTTAAGCTGGTTATCAAGGTTCTCCTAGAACTGGCTC
TGTCTGGCGGCAAAAACATTGAACTGGCTGTCCTGAGAGGAGATCAACCCCTCAAAATTTTAAATCCTGAGGAAATTGAG
AAATATGTTGCTGAAATTGAAAAAAAAAGGAAGAAAACGAAGGAATCCAAAGAA

Alignment

ORF - retro_fcat_1621 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.7 %
• Parental protein coverage: 57.87 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QSNGRRPFGISALIVGFDFDGTPRLYQTD-PSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTI
          Q..GRR.FGISALIV.FD.DG.PRLYQTD.P.G...A........G...VR.F..KNYT..AIET..LT.
Retrocopy QGKGRRLFGISALIVSFDLDGIPRLYQTD<PFGGRTAPGKSRL*AGVP*VRGFPQKNYTHKAIETEELTF

Parental  KLVIKALLEVVQSGGKNIELAVMRRDQPLKILNPEEIEKYVAEIEKEKEENEKKKQ
          KLVIK.LLE...SGGKNIELAV.R.DQPLKILNPEEIEKYVAEI..........K.
Retrocopy KLVIKVLLELALSGGKNIELAVLRGDQPLKILNPEEIEKYVAEIXXXXKKTKESKE

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	21.81 RPM
SRP017611_kidney	0.00 RPM	53.28 RPM
SRP017611_liver	0.00 RPM	25.98 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1621 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1621 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 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000005127	1 retrocopy	retro_btau_1356,
Callithrix jacchus	ENSCJAG00000014419	1 retrocopy	retro_cjac_426,
Felis catus	ENSFCAG00000003249	1 retrocopy	retro_fcat_1621 ,
Mus musculus	ENSMUSG00000027566	1 retrocopy	retro_mmus_407,
Rattus norvegicus	ENSRNOG00000008630	1 retrocopy	retro_rnor_2693,
Ictidomys tridecemlineatus	ENSSTOG00000012489	1 retrocopy	retro_itri_279,
Tupaia belangeri	ENSTBEG00000012281	2 retrocopies	retro_tbel_1048, retro_tbel_2392,
Drosophila melanogaster	FBgn0004066	1 retrocopy	retro_dmel_63,