RetrogeneDB ID: retro_fcat_117

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: A1:100861578..100863120(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000029755
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000015258
• Aliases: None
• Description: None

Sequence

>retro_fcat_117
ATGGTGCTGGATCTGGATTTGTTTCGGGTAGATAAAGGAGGGGACCCAGCCCTCATCCGAGAGACGCAGGAGAAGCGCTT
CAAGGACCCGGGACTAGTAGATCAGCTGGTGAAGGCAGACGGCGAGTGGCGACGATGCCGATTTCGGGCAGACAACTTGA
ACAAGCTGAAGAACCTATGTAGCAAGACAATTGGGGAGAAAATGAAGAAAAAAGAGCCAGTGGGGGATGAGTCCATTCCG
GAGGATGTATTAAATCTTGATGACCTCACTGCAGACACTTTAGCTAACCTGAAAGTCTCACAAATCAAAAAAGTCCGGCT
CCTCATCGATGAAGCCATCCTAAAATGTGATGCCGAGCGGGTAAGGTTGGAGGCAGAGCGGTTTGAGAACCTCCGAGAGA
TAGGGAACCTTCTGCATCCCTCTGTGCCCATCAGCAATGACGAGGATGCAGACAACAAAGTCGAGAGGATCTGGGGTGAC
TGTACGGTCAGGAAGAAGTACTCTCACGTGGACCTGGTGGTGATGGTAGATGGCTTTGAAGGCGAAAAGGGGGCCGTGGT
GGCTGGAAGTCGAGGGTACTTCCTGAAGGGGGTCCTGGTATTCCTGGAACAGGCGCTCATCCAGTATGCCCTTCGCACTT
TGGGGAGTCGGGGCTACACTCCCATTTATACTCCCTTTTTCATGAGGAAGGAGGTCATGCAGGAAGTGGCACAGCTCAGC
CAGTTTGACGAAGAACTGTATAAGGTGATTGGCAAAGGCAGTGAAAAGTCGGATGACAACTCCTATGATGAGAAATACCT
GATTGCCACATCAGAGCAGCCTATAGCTGCTCTGCACCGGGACGAGTGGCTGCGGCCCGAGGATCTGCCAATCAAGTATG
CCAGCCTGTCCACCTGCTTTCGCCAGGAGGTGGGCTCCCATGGCCGAGACACCCGCGGCATCTTTCGAGTCCATCAGTTT
GAGAAGATTGAACAGTTTGTCTACTCGTCACCACACGACAACAAGTCATGGGAGATGTTTGAAGAGATGATTGCTACCGC
AGAGGACTTCTACCAGTCTTTGGGGATCCCTTACCACATTGTGAATATTGTCTCAGGTTCTTTGAATCATGCTGCCAGTA
AGAAGCTTGACCTGGAGGCCTGGTTTCCGGGCTCCGGAGCCTTCCGTGAGTTAGTCTCCTGTTCTAACTGCACAGACTAT
CAGGCTCGCCGGCTCCGAATCCGATACGGGCAAACCAAGAAGATGATAGACAAGGTAGAGTTTGTCCACATGCTCAATGC
CACGATGTGCGCCACCACTCGCACCATCTGCGCCATCCTGGAGAACTACCAGACAGAGAAGGGGATTGTTGTGCCTGAGA
AATTGAAGGAGTTCATGCCGCCAGGTCTCCAAGAACTGATCCCTTTTGTGAAGCCTGCCCCCATTGACCAGGAGCCATCA
AAGAAGCAGAAGAAGCAGCATGAGGGCAGCAAAAAGAAAGGGGCAGCAAGAGATGTCCCCCTAGAAAGCCGGCTGCAGAA
CATGGAGGTCACTGATTCTTGA

Alignment

ORF - retro_fcat_117 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.61 %
• Parental protein coverage: 99.81 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VLDLDLFRVDKGGDPALIRETQEKRFKDPGLVDQLVKADGEWRRCRFRADNLNKLKNLCSKTIGEKMKKK
          VLDLDLFRVDKGGDPALIRETQEKRFKDPGLVDQLVKADGEWRRCRFRADNLNKLKNLCSKTIGEKMKKK
Retrocopy VLDLDLFRVDKGGDPALIRETQEKRFKDPGLVDQLVKADGEWRRCRFRADNLNKLKNLCSKTIGEKMKKK

Parental  EPVGDESIPEDVLNLDDLTADTLANLKVSQIKKVRLLIDEAILKCDAERVRLEAERFENLREIGNLLHPS
          EPVGDESIPEDVLNLDDLTADTLANLKVSQIKKVRLLIDEAILKCDAERVRLEAERFENLREIGNLLHPS
Retrocopy EPVGDESIPEDVLNLDDLTADTLANLKVSQIKKVRLLIDEAILKCDAERVRLEAERFENLREIGNLLHPS

Parental  VPISNDEDADNKVERIWGDCTVRKKYSHVDLVVMVDGFEGEKGAVVAGSRGYFLKGVLVFLEQALIQYAL
          VPISNDEDADNKVERIWGDCTVRKKYSHVDLVVMVDGFEGEKGAVVAGSRGYFLKGVLVFLEQALIQYAL
Retrocopy VPISNDEDADNKVERIWGDCTVRKKYSHVDLVVMVDGFEGEKGAVVAGSRGYFLKGVLVFLEQALIQYAL

Parental  RTLGSRGYTPIYTPFFMRKEVMQEVAQLSQFDEELYKVIGKGSEKSDDNSYDEKYLIATSEQPIAALHRD
          RTLGSRGYTPIYTPFFMRKEVMQEVAQLSQFDEELYKVIGKGSEKSDDNSYDEKYLIATSEQPIAALHRD
Retrocopy RTLGSRGYTPIYTPFFMRKEVMQEVAQLSQFDEELYKVIGKGSEKSDDNSYDEKYLIATSEQPIAALHRD

Parental  EWLRPEDLPIKYAGLSTCFRQEVGSHGRDTRGIFRVHQFEKIEQFVYSSPHDNKSWEMFEEMIATAEDFY
          EWLRPEDLPIKYA.LSTCFRQEVGSHGRDTRGIFRVHQFEKIEQFVYSSPHDNKSWEMFEEMIATAEDFY
Retrocopy EWLRPEDLPIKYASLSTCFRQEVGSHGRDTRGIFRVHQFEKIEQFVYSSPHDNKSWEMFEEMIATAEDFY

Parental  QSLGIPYHIVNIVSGSLNHAASKKLDLEAWFPGSGAFRELVSCSNCTDYQARRLRIRYGQTKKMMDKVEF
          QSLGIPYHIVNIVSGSLNHAASKKLDLEAWFPGSGAFRELVSCSNCTDYQARRLRIRYGQTKKM.DKVEF
Retrocopy QSLGIPYHIVNIVSGSLNHAASKKLDLEAWFPGSGAFRELVSCSNCTDYQARRLRIRYGQTKKMIDKVEF

Parental  VHMLNATMCATTRTICAILENYQTEKGIVVPEKLKEFMPPGLQELIPFVKPAPIDQEPSKKQKKQHEGSK
          VHMLNATMCATTRTICAILENYQTEKGIVVPEKLKEFMPPGLQELIPFVKPAPIDQEPSKKQKKQHEGSK
Retrocopy VHMLNATMCATTRTICAILENYQTEKGIVVPEKLKEFMPPGLQELIPFVKPAPIDQEPSKKQKKQHEGSK

Parental  KKGAARDVPLESRLQNMEVTDS
          KKGAARDVPLESRLQNMEVTDS
Retrocopy KKGAARDVPLESRLQNMEVTDS

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	2.75 RPM	42.58 RPM
SRP017611_kidney	0.62 RPM	15.56 RPM
SRP017611_liver	0.91 RPM	22.95 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_117 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_117 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000020092	1 retrocopy	retro_etel_543,
Felis catus	ENSFCAG00000015258	1 retrocopy	retro_fcat_117 ,