RetrogeneDB ID: retro_fcat_966

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B4:64170375..64172109(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSFCAG00000026372
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ZC3H14
• Ensembl ID: ENSFCAG00000012898
• Aliases: None
• Description: zinc finger CCCH-type containing 14 [Source:HGNC Symbol;Acc:20509]

Sequence

>retro_fcat_966
ATTAGGAGTTTATGTTAGCTTCACGGTGTATTAGATAAACTTCGTTCTGTTACAACTGATCCCTCCAGTCTCAAGTCTTC
TGATACCAACATCTTTGATAATAACGTGTCTTCAAACAAGAGCAGTTTCGGTCGGGGAGACGAGAGAAGGCCTGAAGCTG
CAGTGCCACCCCTCGCAGTTGCTAGCACAAGACCTGAGAAAAGAGATTCCAGGGTTTCTACTAGTTCACAGGAGCAGAAA
ACCACTAATGTTAGACAGACTTACGATGATGGAGCTGGAACCCGATTAATGTCAACTGTGAAGCCTCTGAGGGAGCCAGC
ACCCTCTGAAGATGTGATTGATATTAAGCCAGAACCAGATGATCTCATTGATGAAGACCTCAATTTTGTGCAGGAGAATC
CCTTATCTCAGAAAAAACCGACAGTGACGCTTATGTATGGTTCTTCTCGCCCTTCTATTGAAATTTATCGACCACCTGCA
AGTCGAAATGCAAATAGTGGTGCTCATTTAAACAGGTTGCAATTTCAGCAGCAACAAAACAATATTCATGCTGCCAAGCA
ACCTGATATACAGAACAGCCGGGTATATGAAACAGGACGTTTGTGTGAACAGGAAGTGCTTAACAGCTTAGAAGGGACTT
CTAGTCCCTTCTTCAGAAACAACTCAGAAAAAATGAGTATTGAGGAAGAAAACTTTTGGAAGAGAAAGTTGCCTGTGGTA
AGTTCCGTTGTTAAAGTAAAAAAATTCAATCATGATGGAGAAGAGGAGGAGGAAGATGATGATTGTGGGTCTCATACAGG
AAGCATCTCCAACAGTGTGTCAGTGCCAGCAAAGCCTGAAAGGAGACCTTCACTTCCACCTTCTAAACAAGCTAACAAGA
ATCTAATTTTGAAGGCTGTATCTGAAGCTCAAGAATCTGTAACAAAAACAACGAACTATTCTACAGTCTCACAGAAACAG
ACACTTCCAGTTGCTCCCAGAACTCGAACTTCTCAAGAAGAATTGCTGGCAGAAATGGTCCAGGGGCAAAGCAGGACCCC
CAGGATAAGTCCTCCCATTAAAGAAGAGGAAACAAAAGGAGATAATATAGAAAAAAGTCAAGGAGCTCCACAGAGGCAGT
TGTTATCCCGACTACAAATCGACCCAGTAATGGCAGAAACTCTGCAGATCAGTCGAGATTACTATGACATGGAATCCATG
GTCCATGCAGACACAAGATCATTTATTCTGAAGAAGCCAAAGCTGTCTGAGGAAATAGTAGTGGCACCAAACCAGGAGTC
GGGGATGAAGACTGCAGATACCCTTCGGGTACTTTCAGGACACCTTATGCAGACACGAGATCTTGTACAACCAGATAAAC
CTGCAAGTCCCAAGCTTATAGTGACGCTGGATGGTGTCCCCAGCCCCCCAGGATACATGTCAGATCAAGAGGAGGACATG
TGCTTTGAAGGAATGAAACGTGTAAACCAAACTGCAGCCGCGAGCAAGGGACTCAGAGGTCTCCTCCACCCACAGCAGTT
GCAGTTGATGAGCAGGCAGCTTGATGACCCAAATGGTAGCTTTGCAAATGCTGAGATGAGTGAACTGAGTGTGGCCCGGA
AACCAGAAAAACTTCTGGAGCGTTGCAAGTACTGGCCTGCCTGTAAAAATGGGGATGAGTGTGCTTACCATCATCCTGTT
TCACCTTGCAAAGCCTTCCCCAATTGTACATTTGCTGAGAAGTGTTTGTTTATC

Alignment

ORF - retro_fcat_966 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.37 %
• Parental protein coverage: 79.72 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IRFTVWLHGVLDKLRSVTTDPSSLKSSDTNIFDNNVSSNKSSFGRGDERRHEAAVPPLAVASTRPEKRDS
          IR....LHGVLDKLRSVTTDPSSLKSSDTNIFDNNVSSNKSSFGRGDERR.EAAVPPLAVASTRPEKRDS
Retrocopy IRSLC*LHGVLDKLRSVTTDPSSLKSSDTNIFDNNVSSNKSSFGRGDERRPEAAVPPLAVASTRPEKRDS

Parental  RVSTSSQEQKTTNVRQTYDDGAATRLMSTVKPLREPAPSEDVIDIKPEPDDLIDEDLNFVQENPLSQKKP
          RVSTSSQEQKTTNVRQTYDDGA.TRLMSTVKPLREPAPSEDVIDIKPEPDDLIDEDLNFVQENPLSQKKP
Retrocopy RVSTSSQEQKTTNVRQTYDDGAGTRLMSTVKPLREPAPSEDVIDIKPEPDDLIDEDLNFVQENPLSQKKP

Parental  TVTLTYGSSRPSIEIYRPPASRNADSGAHLNRLQFQQQQNNIHAAKQPDLQNSRVYETGRLCEQEVLNSL
          TVTL.YGSSRPSIEIYRPPASRNA.SGAHLNRLQFQQQQNNIHAAKQPD.QNSRVYETGRLCEQEVLNSL
Retrocopy TVTLMYGSSRPSIEIYRPPASRNANSGAHLNRLQFQQQQNNIHAAKQPDIQNSRVYETGRLCEQEVLNSL

Parental  EETYSPFFRNNSEKMSIEEENFRKRKLPVVSSVVKVKKFNHDGEEEEEDDDCGSRTGSISSSVSVPAKPE
          E.T.SPFFRNNSEKMSIEEENF.KRKLPVVSSVVKVKKFNHDGEEEEEDDDCGS.TGSIS.SVSVPAKPE
Retrocopy EGTSSPFFRNNSEKMSIEEENFWKRKLPVVSSVVKVKKFNHDGEEEEEDDDCGSHTGSISNSVSVPAKPE

Parental  RRPSLPPSKQANKNLILKAISEAQESVTKTTNYSTVSQKQTLPVAPRTRTSQEELLAEMVQGQSRTPRIS
          RRPSLPPSKQANKNLILKA.SEAQESVTKTTNYSTVSQKQTLPVAPRTRTSQEELLAEMVQGQSRTPRIS
Retrocopy RRPSLPPSKQANKNLILKAVSEAQESVTKTTNYSTVSQKQTLPVAPRTRTSQEELLAEMVQGQSRTPRIS

Parental  PPIKEEETKGDNIEKSQGAPQRQLLSRLQIDPVMAETLQISQDYYDMESMVHADTRSFILKKPKLSEEIV
          PPIKEEETKGDNIEKSQGAPQRQLLSRLQIDPVMAETLQIS.DYYDMESMVHADTRSFILKKPKLSEEIV
Retrocopy PPIKEEETKGDNIEKSQGAPQRQLLSRLQIDPVMAETLQISRDYYDMESMVHADTRSFILKKPKLSEEIV

Parental  VAPNQESGMKTADTLRVLSGHLMQTRDLVQPDKPASPKFIVTLDGVPSPPGYMSDQEEDMCFEGMKPVNQ
          VAPNQESGMKTADTLRVLSGHLMQTRDLVQPDKPASPK.IVTLDGVPSPPGYMSDQEEDMCFEGMK.VNQ
Retrocopy VAPNQESGMKTADTLRVLSGHLMQTRDLVQPDKPASPKLIVTLDGVPSPPGYMSDQEEDMCFEGMKRVNQ

Parental  TAAASKGLRGLLHPQQLQLMSRQLDDPNGSFANAEMSELSVAQKPEKLLERCKYWPACKNGDECAYHHPV
          TAAASKGLRGLLHPQQLQLMSRQLDDPNGSFANAEMSELSVA.KPEKLLERCKYWPACKNGDECAYHHPV
Retrocopy TAAASKGLRGLLHPQQLQLMSRQLDDPNGSFANAEMSELSVARKPEKLLERCKYWPACKNGDECAYHHPV

Parental  SPCKAFPNCKFAEKCLFV
          SPCKAFPNC.FAEKCLF.
Retrocopy SPCKAFPNCTFAEKCLFI

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	1.15 RPM	40.74 RPM
SRP017611_kidney	0.82 RPM	55.24 RPM
SRP017611_liver	0.51 RPM	28.71 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_966 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_966 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000030453	1 retrocopy	retro_btau_331,
Callithrix jacchus	ENSCJAG00000017345	1 retrocopy	retro_cjac_1429,
Felis catus	ENSFCAG00000012898	1 retrocopy	retro_fcat_966 ,