RetrogeneDB ID: retro_fcat_135

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B1:81590600..81591194(-)
• Located in intron of: ENSFCAG00000003048

Retrocopy information

• Ensembl ID: ENSFCAG00000028577
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000015089
• Aliases: None
• Description: None

Sequence

>retro_fcat_135
ATGAAGCCGCCTAGTTCATTGCAAACAAGTGAGTTTGACTCATCAGATGAAGAGCCTATTGAAGATGAACAGACTCCAAT
TCAGATATCATGGCTACCCCTGTCACGAGTGAATTGTTCTCAGCTTCTTGGTTTGTGTGCTCTTCCAGAAGAACTAAAGA
GCTGTGGTATACAAGACATATTTGTTTTCTGCACCAGAGGGGAACTGTCAAAATACAGAGTCCCAAACCTTTTGGACCTC
TACCATCAGTATGGAATTATCACTCATCATCATCCAATCCCAGATGGAGGGACTCCTAACATAGCCAGCTGCTGTGAAAT
AATGGAGGAGCTCGCAATCTGCCTTAAGAATAACCGGAAAACCTTAATACACTGTTATGGAGGACTTGGAAGATCTTGTC
TTGTAGCCGCTTGTCTCCTACTATACCTGTCTGACACAGTTTCACCAGAGCAAGCCATAGACAGCCTGAGAGACCTAAGA
GGATCTGGGGCAATACAGACTGTAAAGCAATATAATTATCTTCATGAGTTTCGGGACAAACTAGCCGCACATCTATCATC
AAGAGATTCATTATCAAGATCTGTATCTAGATAA

Alignment

ORF - retro_fcat_135 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.65 %
• Parental protein coverage: 70.81 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EELKSYGIQDIFVFCTRGELSKYRVPNLLDLYHQYGIITHHHPIPDGGTPNIASCCEIMEELAICLKNNR
          EELKS.GIQDIFVFCTRGELSKYRVPNLLDLYHQYGIITHHHPIPDGGTPNIASCCEIMEELAICLKNNR
Retrocopy EELKSCGIQDIFVFCTRGELSKYRVPNLLDLYHQYGIITHHHPIPDGGTPNIASCCEIMEELAICLKNNR

Parental  KTLIHCYGGLGRSCLVAACLLLYLSDTVSPEQAIDSLRDLRGSGAIQTIKQYNYLHEFRDKLAAHLSSRD
          KTLIHCYGGLGRSCLVAACLLLYLSDTVSPEQAIDSLRDLRGSGAIQT.KQYNYLHEFRDKLAAHLSSRD
Retrocopy KTLIHCYGGLGRSCLVAACLLLYLSDTVSPEQAIDSLRDLRGSGAIQTVKQYNYLHEFRDKLAAHLSSRD

Parental  SLSRSVSR
          SLSRSVSR
Retrocopy SLSRSVSR

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	0.23 RPM	0.00 RPM
SRP017611_kidney	0.00 RPM	0.00 RPM
SRP017611_liver	0.00 RPM	0.30 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_135 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_135 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 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012823	1 retrocopy	retro_chof_1806,
Echinops telfairi	ENSETEG00000018617	1 retrocopy	retro_etel_1763,
Felis catus	ENSFCAG00000015089	2 retrocopies	retro_fcat_135 , retro_fcat_626,
Loxodonta africana	ENSLAFG00000014833	1 retrocopy	retro_lafr_637,
Macropus eugenii	ENSMEUG00000002497	3 retrocopies	retro_meug_1255, retro_meug_1768, retro_meug_1849,
Procavia capensis	ENSPCAG00000015559	1 retrocopy	retro_pcap_104,
Sarcophilus harrisii	ENSSHAG00000008977	1 retrocopy	retro_shar_502,
Tupaia belangeri	ENSTBEG00000010203	2 retrocopies	retro_tbel_1809, retro_tbel_4700,