RetrogeneDB ID: retro_fcat_54

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: X:34881076..34881661(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000030887
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000003318
• Aliases: None
• Description: None

Sequence

>retro_fcat_54
ATGTCTACTGTGCCGCTGCGGGTGGCAGTGGTGTGTGCCAGCAACCAAAACCGGAGCATGGAGGCCCACTACTTTCTCAG
CAAACGGGGATTCAGCGTCCGGTCCTTTGGAACGGGAACTCACGTGAAGCTCCCGGGCCCCGCACCCGACCAGCCCAACG
TTTACGACTTCCAAACCACCTATGACCAGATGTACAACGATCTCGTCAGCAAGGACAGAGACCTCTACACGCAAAATGGC
ATGCTACATATGTTGGAGCGTAACAAAAGGATCAAGCCCCGGCCGGAGAGGTTCCAGAACTGCCAGGACGTGTTTGATCT
GATTGTCACCTGCGAAGAGAGTGTGTACGACCAGGTGGTGGAAGATATGAATTCCAGAGAGCAAGTGACCTGCCAGCCGG
TGCACGTGATCAACGTGGACATCGAGGACAACGACGAAGAGGCCACCGTGGGCGCGATCCTCATCTGCAAGCTGTGCCAG
TGCATTCAGCGCACCGAGGACATGGAGGACGAATTGGACGAGCTGTTGCAGGAGTTCGAGGAGAAGAGCGGCAGACCCTT
CCTGCACACCGTGTGCTTCTACTGA

Alignment

ORF - retro_fcat_54 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.55 %
• Parental protein coverage: 83.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSGRPLRIRTVCCRIADGLCMRCQRLQIKRGFSVRSFGTGTHVKLPGPAPDKPNVYDFKTTYDQMYNDLL
          MS..PLR...VC........M.......KRGFSVRSFGTGTHVKLPGPAPD.PNVYDF.TTYDQMYNDL.
Retrocopy MSTVPLRVAVVCAS-NQNRSMEAHYFLSKRGFSVRSFGTGTHVKLPGPAPDQPNVYDFQTTYDQMYNDLV

Parental  RKDKELYTQNGILHMLDRNKRIKPRPERFQNCRDLFDLILTCEERVYDQVVEDLNSREQETCQPVHVINV
          .KD..LYTQNG.LHML.RNKRIKPRPERFQNC.D.FDLI.TCEE.VYDQVVED.NSREQ.TCQPVHVINV
Retrocopy SKDRDLYTQNGMLHMLERNKRIKPRPERFQNCQDVFDLIVTCEESVYDQVVEDMNSREQVTCQPVHVINV

Parental  DIQDNHEEATLGAFLICELCQCVSQ
          DI.DN.EEAT.GA.LIC.LCQC...
Retrocopy DIEDNDEEATVGAILICKLCQCIQR

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	18.48 RPM
SRP017611_kidney	0.00 RPM	14.74 RPM
SRP017611_liver	0.00 RPM	12.54 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_54 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_54 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 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013736	3 retrocopies	retro_amel_1930, retro_amel_292, retro_amel_84,
Dipodomys ordii	ENSDORG00000011714	1 retrocopy	retro_dord_433,
Erinaceus europaeus	ENSEEUG00000010799	1 retrocopy	retro_eeur_648,
Felis catus	ENSFCAG00000003318	1 retrocopy	retro_fcat_54 ,
Microcebus murinus	ENSMICG00000011016	5 retrocopies	retro_mmur_1057, retro_mmur_1081, retro_mmur_1353, retro_mmur_890, retro_mmur_891,
Mustela putorius furo	ENSMPUG00000014394	2 retrocopies	retro_mputfur_108, retro_mputfur_1408,
Sarcophilus harrisii	ENSSHAG00000009747	1 retrocopy	retro_shar_32,
Tupaia belangeri	ENSTBEG00000010136	3 retrocopies	retro_tbel_1675, retro_tbel_2435, retro_tbel_2704,