RetrogeneDB ID: retro_fcat_1

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A3:16637924..16638398(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000011143
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000031316
• Aliases: None
• Description: None

Sequence

>retro_fcat_1
ATGGAGCCAGAAGCCTTAGAAATTTGCCCTTACAACCCGCACCACCGAGTCCCACTCAGCAGATTTCAGTACCACCTGGC
ATCCTGCAGGAGAAAGAACCCCAAGAAAGCCAAAAAGATGGCCAGCTGCAAATACAATGCCTGCCACGTGGTCCCCATCA
AAAAGCTGGAGGAGCACGAGGCTGCCTGTGTCAGCAGAAGCACAATGGAGGAAGAGGACAGCCTGTGCCCCCTGAAAGTT
AGCCTTCCAAGTTCAGAGCAGAGTGGAAATATCCCTCCAGAGCGCCCCTGGCTCCCCAGTTCTGATGTCTGGAATGTCGA
CAGCACTAACTGCCATCCCGTGTTTGTCCTTAAAACTTTTGTTCCCCAAAAGCTTGTTTGCGAAAGTGACATAAGAGAGT
CAGAGAGAGAGAGAGGCCCATTCCCCAAGACTGACCACCCCCCAGAAGACTCTCAGACCAGGAGGATAAACCAC

Alignment

ORF - retro_fcat_1 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.55 %
• Parental protein coverage: 92.21 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEPEVLEVCPYDPNHRMPASRLRYHLASCRKKNLKIAKKMANCKYNACHVVPVKRLKEHEANCVNRTAVD
          MEPE.LE.CPY.P.HR.P.SR..YHLASCR.KN.K.AKKMA.CKYNACHVVP.K.L.EHEA.CV.R....
Retrocopy MEPEALEICPYNPHHRVPLSRFQYHLASCRRKNPKKAKKMASCKYNACHVVPIKKLEEHEAACVSRSTME

Parental  DEPFNLP-KVISPSLEPNEKLSNTANQILDPDVWNIDNTYHSPLFVLKTFAPKMLVCKSDFNPLKETMDE
          .E....P.KV..PS.E...............DVWN.D.T...P.FVLKTF.P..LVC.SD.....E...E
Retrocopy EEDSLCPLKVSLPSSEQSGNIPPERPWLPSSDVWNVDSTNCHPVFVLKTFVPQKLVCESD---IRESERE

Parental  KHP
          ..P
Retrocopy RGP

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	0.00 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1 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
Anolis carolinensis	ENSACAG00000029590	1 retrocopy	retro_acar_141,
Ailuropoda melanoleuca	ENSAMEG00000000958	1 retrocopy	retro_amel_91,
Cavia porcellus	ENSCPOG00000023851	1 retrocopy	retro_cpor_93,
Felis catus	ENSFCAG00000010156	5 retrocopies	retro_fcat_1252, retro_fcat_1302, retro_fcat_1543, retro_fcat_557, retro_fcat_940,
Felis catus	ENSFCAG00000031316	1 retrocopy	retro_fcat_1 ,
Mustela putorius furo	ENSMPUG00000005664	1 retrocopy	retro_mputfur_116,
Mus musculus	ENSMUSG00000053508	1 retrocopy	retro_mmus_199,
Rattus norvegicus	ENSRNOG00000036830	1 retrocopy	retro_rnor_1938,