RetrogeneDB ID: retro_fcat_978

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B4:89060251..89061902(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: BCLAF1
• Ensembl ID: ENSFCAG00000027614
• Aliases: None
• Description: BCL2-associated transcription factor 1 [Source:HGNC Symbol;Acc:16863]

Sequence

>retro_fcat_978
ACCCCCTCTCAGCATCCACATTCCATTCAGCATAGTCCTGAAAGGTCTGGGTCTGGTTCTGTTGGAAATGGATCTAGTTG
GTGCAGTCCTTCTCAGAATAGTCCAGTTCATCATATCCCTTCACGAAGAAGCCCTGCAAGGACAATCACACCACAGAATG
CTCTAAGAGATGAAGCTAGGGGACGTTCTTCATTTTATTCTGATGGTGTAGATCAGGAAACTGCAAAGACAGGAAAATTC
TTAAAAAGGTTCACAGATGAAGAGTCTAGAGTATTCCTTCTTGATAGAGGTAATACCAGGGATAAAGAGGCTCCAAAGGA
GAAAGGATCAGAGAAAGGGAGGACAGAGGGAGAATGGGAAGATCAGGAAGCTCTAGATTACTTTAGTGGTAAAGAGTCTG
GAAAACAAAAGTTTAATGATTCAGAAGGGGATGACATAGAGGAGACAGAGGACTATAGACAGTTGAGGACGTCAGTCCTT
GCAGATCAGGGTAAAAAAATTGCTACTACATCTCACCAGAATACTGAAGAGGAAGGACCCAAGTACAAGTCCACAGTTTC
ACTGAAAGGCAATAGAGAAAGTGATGGATTTAGAGAAGAAAAAAAACTATAAACTTAAAGAGACTGGCTGCGTAGTGGAA
AGGCCTAGAGCTGCAAAAGATAAGCACAAGGAAGAAGACAAAAATGCTGAGAGAACAACAGTAAAAGAAAGAAACTCAGT
CACTTGAGCAGGTAAAGTCTGAAAAGCTCAAAGACCTCTTTGATTACAATCCCCCTGTACACAAGAATCTGGATGCATGA
GAAAAGTCTACCTTCAGAGAGGAGAGCCCACTTAGGATCAAAATGATAGCTACTGATTCTCATTGACTTGAAGTCAAACT
CAAAATGGCACCCGTTCCACTTGATGATTCTAACAGACCTGCTTCCTTGACTAAAGACAGACTACTTGCTAGTACATTTG
TGCATTCTGTCAAGAAAGAACAAGAATTCCAAACCATCTTTGACCACATTAAGTTGCCACAGGCTATCAAAGGCACTTCA
GAGTCATTTATTCAACACATTGTGTCCTTGGTTCATCATGTTAAAGAGCAATACTTCAAATCAGCTGCAGTGACTCTAAA
CGAGAGGTTCACTTCATATCAGAAAGCCACTGAAGAATATAGTGCCAGGCAAAAGAGCCCTGAGATACACAGGAGAATTG
ACATCTCTCCAAGTGCCCTGAGGAAGCATACTCATTTAGCAGGAGAAGATAGAGTTTTTAAAGAAGAAAATCAAAAGGGA
GATAAAAAATTAAGGTGTGATTCTACTGATCTTTGGCATGACATTGATCGTTGGAGAAAAGAAAGAAGTAAAGAATGGGG
GATTCCAAGGACTCCAGGGAATCCAATGGATCAAGAAAGCAGGAAAAAATTCCAAAAGATTACAAGGAATACAAATCTTA
CAAAGATGACAGTAAACATAAACATAGAAAGCAATATCATTCTCGATCCTCATCATCTTCAGCATCACCTTCTCCCAGTT
TTCAAGAAGAAAAGGAGAGTAAGAAGGAAAGAGAAGAAGAGTTTAAAACTCACCACGAACTGAAAGAATACTCAGATTTT
GGAGGAGTTAGCCGACCACGAGGAACCTTTCATGATGACAGAGATGATGGT

Alignment

ORF - retro_fcat_978 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.15 %
• Parental protein coverage: 59.98 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TPSQHSHSIQHSPERSGSGSVGNGSSRYSPSQNSPIHHIPSRRSPAKTITPQNAPRDEARGRSSFYPDGG
          TPSQH.HSIQHSPERSGSGSVGNGSS..SPSQNSP.HHIPSRRSPA.TITPQNA.RDEARGRSSFY.DG.
Retrocopy TPSQHPHSIQHSPERSGSGSVGNGSSWCSPSQNSPVHHIPSRRSPARTITPQNALRDEARGRSSFYSDGV

Parental  DQETAKTGKFLKRFTDEESRVFLLDRGNTRDKEAPKEKGSEKGRAEGEWEDQEALDYFSDKESGKQKFND
          DQETAKTGKFLKRFTDEESRVFLLDRGNTRDKEAPKEKGSEKGR.EGEWEDQEALDYFS.KESGKQKFND
Retrocopy DQETAKTGKFLKRFTDEESRVFLLDRGNTRDKEAPKEKGSEKGRTEGEWEDQEALDYFSGKESGKQKFND

Parental  SEGDDTEETEDYRQFRKSVLADQGKNFATTSHRNTEEEGPKYKSKVSLKGNRESDGFRE-EKNYKLKETG
          SEGDD.EETEDYRQ.R.SVLADQGK..ATTSH.NTEEEGPKYKS.VSLKGNRESDGFRE....YKLKETG
Retrocopy SEGDDIEETEDYRQLRTSVLADQGKKIATTSHQNTEEEGPKYKSTVSLKGNRESDGFRE>XXXYKLKETG

Parental  YVVERPSTAKDKHKEDDKNSERITV-KKETQSPEQVKSEKLKDLFDYSPPLHKNLDAREKSTFREESPLR
          .VVERP..AKDKHKE.DKN.ER.TV.KKETQS.EQVKSEKLKDLFDY.PP.HKNLDA.EKSTFREESPLR
Retrocopy CVVERPRAAKDKHKEEDKNAERTTV>KKETQSLEQVKSEKLKDLFDYNPPVHKNLDA*EKSTFREESPLR

Parental  IKMIASDSHRPEVKLKMAPVPLDDSNRPASLTKDRLLASTLVHSVKKEQEFRSIFDHIKLPQASKSTSES
          IKMIA.DSH..EVKLKMAPVPLDDSNRPASLTKDRLLAST.VHSVKKEQEF..IFDHIKLPQA.K.TSES
Retrocopy IKMIATDSH*LEVKLKMAPVPLDDSNRPASLTKDRLLASTFVHSVKKEQEFQTIFDHIKLPQAIKGTSES

Parental  FIQHIVSLVHHVKEQYFKSAAVTLNERFTSYQKATEEHSARQKSPEIHRLRRIDISPSALRKHTRLAGEE
          FIQHIVSLVHHVKEQYFKSAAVTLNERFTSYQKATEE.SARQKSPEIH..RRIDISPSALRKHT.LAGE.
Retrocopy FIQHIVSLVHHVKEQYFKSAAVTLNERFTSYQKATEEYSARQKSPEIH--RRIDISPSALRKHTHLAGED

Parental  RVFKEENQKGDKKLRCDSADLRHDIDRRRKERSKE-RGDSKGSRESSGSRKQEKTPKDYKEYKSYKDDSK
          RVFKEENQKGDKKLRCDS.DL.HDIDR.RKERSKE..GDSK.SRES.GSRKQEK.PKDYKEYKSYKDDSK
Retrocopy RVFKEENQKGDKKLRCDSTDLWHDIDRWRKERSKE<MGDSKDSRESNGSRKQEKIPKDYKEYKSYKDDSK

Parental  HKSREQDHSRSSSSSASPSSPSSREEKESKKEREDEFKTHHELKEYSGFGGVSRPRGTFFRIRGRG
          HK.R.Q.HSRSSSSSASP.SPS..............FKTHHELKEYS.FGGVSRPRGTF...R..G
Retrocopy HKHRKQYHSRSSSSSASP-SPSFXXXXXXXXXXXXXFKTHHELKEYSDFGGVSRPRGTFHDDRDDG

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	82.29 RPM
SRP017611_kidney	0.52 RPM	39.47 RPM
SRP017611_liver	0.91 RPM	32.55 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_978 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_978 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000027614	1 retrocopy	retro_fcat_978 ,
Homo sapiens	ENSG00000029363	1 retrocopy	retro_hsap_3364,
Gorilla gorilla	ENSGGOG00000001824	1 retrocopy	retro_ggor_2279,
Macaca mulatta	ENSMMUG00000003710	1 retrocopy	retro_mmul_2102,
Pongo abelii	ENSPPYG00000017032	1 retrocopy	retro_pabe_2767,
Pan troglodytes	ENSPTRG00000018635	1 retrocopy	retro_ptro_2287,
Tupaia belangeri	ENSTBEG00000014886	1 retrocopy	retro_tbel_628,