RetrogeneDB ID: retro_fcat_626

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B1:73324639..73325266(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

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

Sequence

>retro_fcat_626
CCCAGTTCATTGCAAACAAGTGAATGTGACGCCTCAGAAGAAGAGCCTATTGAAGATGAACAGACTCCAATTCAGATACC
GTGACTACCCCTGTCACGAGTAAATTGTTCTCAGTTTCTTGGGTTATGTGCTCTTCCAGATGGTAAATTTAAAAATGTTA
GAAGAGATACCCAAGAAGGTACAGAAGAACTAAGGAGCTGTGATATACGAGGCGTATTTATTTTCTGCCCCAGAGGGGAA
CTGTCAAAATACCGCGTCCCAAACCTTGAGGACCTCTACCATCACTATGGAATTATCACTCATGATCATCCAATCCCAGA
CGAGGTACTCCCGATGTAGCCATCTGCTGTGAAATAATGGAGGAGCTTATAATCTGCCTTACAAAAGAACTGAAAAATCT
GAATCCACTGTTATGGAGGACTTGGGAGATCTTGTCTGTACCCACTTGTCTCCTACTGTTCCTGTCTCACGGAGCTTCCT
CTCAGCAAGCTGTAGACAGCCTGGGAGACCCAAGAGGATCTGGAGCAATACAAGACTATAAAGCAACATCATTATTTTCA
TGAGTTTCGGGACAAACTAGCTGTACACCTAGCATCAAGAGAGTCATTGTCAAGATCTGTATCTAGA

Alignment

ORF - retro_fcat_626 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.65 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  PSSLQTSEFDSSDEEPIEDEQTPMQISWLPLSRVNCSQFLGLCALPGCKFKNVRRNIQKDTEELKSYGIQ
          PSSLQTSE.D.S.EEPIEDEQTP.QI..LPLSRVNCSQFLGLCALP..KFKNVRR..Q..TEEL.S..I.
Retrocopy PSSLQTSECDASEEEPIEDEQTPIQIP*LPLSRVNCSQFLGLCALPDGKFKNVRRDTQEGTEELRSCDIR

Parental  DIFVFCTRGELSKYRVPNLLDLYHQYGIITHHHPIPD-GGTPNIASCCEIMEELAICLKNNRKTL-IHCY
          ..F.FC.RGELSKYRVPNL.DLYH.YGIITH.HPIPD..GTP..A.CCEIMEEL.ICL....K.L.IHCY
Retrocopy GVFIFCPRGELSKYRVPNLEDLYHHYGIITHDHPIPD<RGTPDVAICCEIMEELIICLTKELKNL>IHCY

Parental  GGLGRSCL-VAACLLLYLSDTVSPEQAIDSLRDLRGSGAIQ-TIKQYNYLHEFRDKLAAHLSSRDSLSRS
          GGLGRSCL.V..CLLL.LS...S..QA.DSL.D.RGSGAIQ.TIKQ..Y.HEFRDKLA.HL.SR.SLSRS
Retrocopy GGLGRSCL<VPTCLLLFLSHGASSQQAVDSLGDPRGSGAIQ>TIKQHHYFHEFRDKLAVHLASRESLSRS

Parental  VSR
          VSR
Retrocopy VSR

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	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_626 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_626 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,