RetrogeneDB ID: retro_fcat_1762

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: F1:64247490..64248517(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000031034
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PRMT1
• Ensembl ID: ENSFCAG00000006081
• Aliases: None
• Description: protein arginine methyltransferase 1 [Source:HGNC Symbol;Acc:5187]

Sequence

>retro_fcat_1762
GAGGTCTCCTGTGGCCAAGCAGAAAGCAGCGAGAAGCCCAACACTGAGGACATGACGTCCAAAGATTACTACTTTGATTC
CTATGCTCACTTCGGCATTCACGAGGAGATGCTGAAAGATGAGGTACGCACCCTCACGTACCGAAACTCCATGTTTCACA
ACCGGCACCTCTTCAAGGACAAGGTGGTGCTGGACGTGGGATCGGGCACAGGGATCCTCTGTATGTTCGCTGCCAAGGCT
GGAGCCCGCAAGGTCATCGGGATCGAGTGTTCCAGTATCTCTGATTATGCGGTGAAGATCGTCAAAGCCAACAAGCTAGA
CCATGTGGTGACCATCATCAAGGGGAAGGTGGAGGAGGTGGAGCTTCCGGTGGAGAAGGTGGACTTCATTATCAGCGAGT
GGATGGGCTACTGCCTTTTCTACGAGTCAATGCTCAACACCGTTCTCTATGCCCGAGACAAGTGGCTGGCACCCGATGGC
CTCATCTTCCCAGACCGGGCCATGCTGTATGTGATGGCCATCGAAGACCGGCAGTACAAAGACTACAAGATCCACTCACT
GGTGGGAGAACGTATATGGCTTTGACATGTCTTGCATCAAAGACGTGGCCATCAAGGAGCCCCTGGTGGACGTGGTGGAC
CCCAAGCAGTTGGTCACCAATGCCTGCCTCATAAAGGAGGTGGACATCTACACTGTCAAGGTGGAAGACCTGACCTTCAC
CTCCCCCTTCTGCCTGCAAGTGAAGCGGAATGACTACGTGCACGCGCTGGTGGCCTACTTCAACATCGAGTTCACTCGCT
GCCACAAGAGGACAGGCTTCTCCACCAGCCCCGAGTCCCCGTACACGCACTGGAAGCAGACCGTGTTCTACACGGAGGAC
TACCTGACCGTGAAGACGGGTGAGGAGATCTTTGGCACCATTGGCATGCAGCCCAATGCCAAGAATAATCACGACCTGGA
CTTCACCATCGACCTGGACTTCAAGGGCCAGCTGTGCGAGCTGTCCTGCTCCACTGACTACCGGATG

Alignment

ORF - retro_fcat_1762 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.08 %
• Parental protein coverage: 91.91 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EVSCGQAESSEKPNAEDMTSKDYYFDSYAHFGIHEEMLKDEVRTLTYRNSMFHNRHLFKDKVVLDVGSGT
          EVSCGQAESSEKPN.EDMTSKDYYFDSYAHFGIHEEMLKDEVRTLTYRNSMFHNRHLFKDKVVLDVGSGT
Retrocopy EVSCGQAESSEKPNTEDMTSKDYYFDSYAHFGIHEEMLKDEVRTLTYRNSMFHNRHLFKDKVVLDVGSGT

Parental  GILCMFAAKAGARKVIGIECSSISDYAVKIVKANKLDHVVTIIKGKVEEVELPVEKVDIIISEWMGYCLF
          GILCMFAAKAGARKVIGIECSSISDYAVKIVKANKLDHVVTIIKGKVEEVELPVEKVD.IISEWMGYCLF
Retrocopy GILCMFAAKAGARKVIGIECSSISDYAVKIVKANKLDHVVTIIKGKVEEVELPVEKVDFIISEWMGYCLF

Parental  YESMLNTVLYARDKWLAPDGLIFPDRATLYVTAIEDRQYKDYKIH-WW-ENVYGFDMSCIKDVAIKEPLV
          YESMLNTVLYARDKWLAPDGLIFPDRA.LYV.AIEDRQYKDYKIH..W.ENVYGFDMSCIKDVAIKEPLV
Retrocopy YESMLNTVLYARDKWLAPDGLIFPDRAMLYVMAIEDRQYKDYKIH>HWWENVYGFDMSCIKDVAIKEPLV

Parental  DVVDPKQLVTNACLIKEVDIYTVKVEDLTFTSPFCLQVKRNDYVHALVAYFNIEFTRCHKRTGFSTSPES
          DVVDPKQLVTNACLIKEVDIYTVKVEDLTFTSPFCLQVKRNDYVHALVAYFNIEFTRCHKRTGFSTSPES
Retrocopy DVVDPKQLVTNACLIKEVDIYTVKVEDLTFTSPFCLQVKRNDYVHALVAYFNIEFTRCHKRTGFSTSPES

Parental  PYTHWKQTVFYMEDYLTVKTGEEIFGTIGMRPNAKNNRDLDFTIDLDFKGQLCELSCSTDYRM
          PYTHWKQTVFY.EDYLTVKTGEEIFGTIGM.PNAKNN.DLDFTIDLDFKGQLCELSCSTDYRM
Retrocopy PYTHWKQTVFYTEDYLTVKTGEEIFGTIGMQPNAKNNHDLDFTIDLDFKGQLCELSCSTDYRM

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	1.49 RPM	32.25 RPM
SRP017611_kidney	0.82 RPM	18.34 RPM
SRP017611_liver	0.40 RPM	6.57 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_1762 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_1762 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 9 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000003670	3 retrocopies	retro_cjac_1800, retro_cjac_1979, retro_cjac_764,
Danio rerio	ENSDARG00000010246	1 retrocopy	retro_drer_7,
Felis catus	ENSFCAG00000006081	1 retrocopy	retro_fcat_1762 ,
Homo sapiens	ENSG00000126457	1 retrocopy	retro_hsap_3406,
Gasterosteus aculeatus	ENSGACG00000004897	1 retrocopy	retro_gacu_2,
Gorilla gorilla	ENSGGOG00000000503	1 retrocopy	retro_ggor_2305,
Macaca mulatta	ENSMMUG00000003029	1 retrocopy	retro_mmul_2121,
Otolemur garnettii	ENSOGAG00000011938	2 retrocopies	retro_ogar_2471, retro_ogar_2929,
Rattus norvegicus	ENSRNOG00000026109	2 retrocopies	retro_rnor_1077, retro_rnor_2668,