RetrogeneDB ID: retro_fcat_44

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: D4:50036327..50037770(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000025255
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSFCAG00000009333
• Aliases: None
• Description: None

Sequence

>retro_fcat_44
ATGCTCTCTAAAACACACGTTACTGGCCCTGGCAAGATGGCGGCGCCCGAGAAGTTACCGTTTCCGGAGAAACCAAGCCA
CAAAAAGTACCGGGCCGCCCTGAAGAAGGAGAAACGAAAGAAACGGCGGCAGGAACTCGCTCGACGGAGAGACTCAGGAC
TCTCCCAGAAGGAGGAGGAGGCTGCTTTTATTGAAGAACAACACCCAGAAGAAGAGATGCTGTCGGAGACCGAGAGGCAA
AAATCACACGAGGCGTGGCTGCTTCGGGAGCAGACGGCGCAAGAAGAATTCCGAATCAAGAAGGAAAAGGAAGAGGCAGC
TAGAAAACGGCAGGAAGAACAGGAGAGAAAGTTGAAGGAAGAGTGGGAAGAGCAGCAGAGAAAGGAGAGAGGAGAGGAGG
AGCAGCAGAAGCTCCAGGAGAAGAGAGAAAGGGAGGAAGCTGCGCAGAAGACGCTGGAGCAGGCTGAAAGCGAGTTGGGA
AATGGTGCCACATGGCAGAACCCAGAACCACCCACGGCCTTAAGGGTAATGGAAAAAGATCGAGCTAACTGTCCGTTCTA
CGGTAAAACAGGAGCGTGCAGATTTGGAGACAGGTGTTTGCGTAAACACAATTTCCCGTCGTCGAGTCCCACGCTTCTGA
TTAAAAGCATGTTTACGACATTTGGAATGGAGCAGTGCAGACGGGATGACTATGACCCCGATGCGAGCCTCGAGTACAGT
GAAGAGGAAACCTACCAGCAATTCCTGGACTTCTATGATGACGTGCTGCCCGAGTTCAGGAGCGTGGGGAAAGTGATCCA
GTTCAAGGTCAGCTGCAACTTCGAACCTCACCTGAGGGGCAACGTGTACGTTCAGTATCAATCGGAAGAAGAATGCCAAG
CCGCCCTTTCTCTGTTTAACGGACGATGGTACGCAGGACGGCAGCTTCGGTGCGAATTCTGCCCCGTGACCCGATGGAAA
ATGGCAATTTGTGGCTTATTTGAAATACAACAATGTCCAAGAGGAAAACACTGCAACTTTCTTCATGTGTTCCGAAATCC
CAACAATGAGTTTTGGGAAGCTAATAGAGACATCTTCCTGTCTCCAGATCGGACTGGCTCCTCCTTTGGCAATGGCTCGG
ACAGGAGAGAGAGGACGGGCCACCAGGACGAATACTACTGGAGGCCCGGGAGGCGGAGAAGCCCTAGTCCATCGCATTCC
TACGAGAGAAGCGGGGAAGCTGAGAGGAAAAGGAAAAGCAGTCACCGGGGGAAGAAGTCTCACAAACACACGTCAAAGAG
TCGCGAGAGGCACAGTTCACGCAGTAGAGGAAGAAAAAGGGACCGCAGCCGGATCCGCGGCAGCCGCAGCCACAGTTCCT
TCGGGTCCAGGAGTCCCGTCGGGAAGAGGTCAGGTAGCAGAGACAGAAGTACTCAGAGTCCCAAATCCAATTTTGTTCTT
TAA

Alignment

ORF - retro_fcat_44 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.51 %
• Parental protein coverage: 99.15 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PDNMAAPGKMMFPEKPSHKKFRAALKKEKRKKRRQELARLRDSGLSQKEEEDAFIEEQHLEEEMLLEIER
          P..MAAP.K..FPEKPSHKK.RAALKKEKRKKRRQELAR.RDSGLSQKEEE.AFIEEQH.EEEML.E.ER
Retrocopy PGKMAAPEKLPFPEKPSHKKYRAALKKEKRKKRRQELARRRDSGLSQKEEEAAFIEEQHPEEEMLSETER

Parental  QKLHEAWLLREQKAQEEFRIKKEKEEAARKRQEEQERKLKEEWEEQQRKER-EEEEQKLQEKREREEAVQ
          QK.HEAWLLREQ.AQEEFRIKKEKEEAARKRQEEQERKLKEEWEEQQRKER.EEE.QKLQEKREREEA.Q
Retrocopy QKSHEAWLLREQTAQEEFRIKKEKEEAARKRQEEQERKLKEEWEEQQRKERGEEEQQKLQEKREREEAAQ

Parental  KMLEQAENELENGATWQNPEPPTDLRIMEKDRANCPFYSKTGACRFGDRCSRKHNFPSSSPTLLIKSMFT
          K.LEQAE.EL.NGATWQNPEPPT.LR.MEKDRANCPFY.KTGACRFGDRC.RKHNFPSSSPTLLIKSMFT
Retrocopy KTLEQAESELGNGATWQNPEPPTALRVMEKDRANCPFYGKTGACRFGDRCLRKHNFPSSSPTLLIKSMFT

Parental  TFGMEQCRRDDYDPDASLEYSEEETYQQFLDFYDDVLPEFKNVGKVIQFKVSCNLEPHLRGNVYVQYQSE
          TFGMEQCRRDDYDPDASLEYSEEETYQQFLDFYDDVLPEF..VGKVIQFKVSCN.EPHLRGNVYVQYQSE
Retrocopy TFGMEQCRRDDYDPDASLEYSEEETYQQFLDFYDDVLPEFRSVGKVIQFKVSCNFEPHLRGNVYVQYQSE

Parental  EECQAALSLFNGRWYAGRQLQCEFCPVTRWKMAICGLFEIQQCPRGKHCNFLHVFRNPNNEFWEANRDIY
          EECQAALSLFNGRWYAGRQL.CEFCPVTRWKMAICGLFEIQQCPRGKHCNFLHVFRNPNNEFWEANRDI.
Retrocopy EECQAALSLFNGRWYAGRQLRCEFCPVTRWKMAICGLFEIQQCPRGKHCNFLHVFRNPNNEFWEANRDIF

Parental  LSPDRTGSSFGKGSDRRERMGHHDDYYGRPRRRRSPSPSHSYKRNGEADRKRRSSHRGKKSHKHLSKSRE
          LSPDRTGSSFG.GSDRRER.GH.D.YY.RP.RRRSPSPSHSY.R.GEA.RKR.SSHRGKKSHKH.SKSRE
Retrocopy LSPDRTGSSFGNGSDRRERTGHQDEYYWRPGRRRSPSPSHSYERSGEAERKRKSSHRGKKSHKHTSKSRE

Parental  RHSSRSRGRKRDGSRIRASRSQSSSRSRSRGRRRSGSRDRTTQSPKS
          RHSSRSRGRKRD.SRIR.SRS.SS..SRS....RSGSRDR.TQSPKS
Retrocopy RHSSRSRGRKRDRSRIRGSRSHSSFGSRSPVGKRSGSRDRSTQSPKS

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	7.35 RPM
SRP017611_kidney	0.00 RPM	5.57 RPM
SRP017611_liver	0.00 RPM	3.23 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_44 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_44 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 10 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000006383	1 retrocopy	retro_fcat_1650,
Felis catus	ENSFCAG00000009333	1 retrocopy	retro_fcat_44 ,
Homo sapiens	ENSG00000169249	1 retrocopy	retro_hsap_39,
Gorilla gorilla	ENSGGOG00000011962	1 retrocopy	retro_ggor_1422,
Macaca mulatta	ENSMMUG00000014054	1 retrocopy	retro_mmul_2030,
Mus musculus	ENSMUSG00000031370	1 retrocopy	retro_mmus_233,
Nomascus leucogenys	ENSNLEG00000009496	1 retrocopy	retro_nleu_1,
Pan troglodytes	ENSPTRG00000021693	1 retrocopy	retro_ptro_25,
Rattus norvegicus	ENSRNOG00000033176	1 retrocopy	retro_rnor_176,
Tarsius syrichta	ENSTSYG00000005278	1 retrocopy	retro_tsyr_1826,