IKMC Project Report - EUCOMM (ID: 40402)

Brpf1 MGI:1926033 ENSMUSG00000001632 OTTMUSG00000022740
Pre-pipeline Designs Vectors ES Cells Mice
Mice - Phenotype Data Available

Mice

Microinjection Status Allele Allele Type ES Cell Clone Genetic Background QC Data MI/Distribution Centre
contact distributor Genotype confirmed Brpf1tm1a(EUCOMM)Wtsi Knockout-First - Reporter Tagged Insertion (Promotorless Cassette) EPD0069_1_G06 C57BL/6Dnk;C57BL/6Dnk;C57BL/6N view
( about ) 		Harwell
Southern Blot pass TV Backbone Assay na 5' LR-PCR na
Loss of WT Allele (LOA) qPCR pass Homozygous Loss of WT Allele (LOA) SR-PCR na Neo Count (qPCR) pass
LacZ SR-PCR na 5' Cassette Integrity Neo SR-PCR na
Mutant Specific SR-PCR na LoxP Confirmation pass 3' LR-PCR
Genotyping Comment -

Mutagenesis Predictions

This gene has 7 wild type transcripts, of which 4 are protein-coding. Following removal of the floxed region, 4 transcripts are predicted to produce a truncated protein product of which 4 may be subject to non-sense mediated decay (NMD). The original allele for this mutation is of type 'Knockout-First - Reporter Tagged Insertion'. The table below shows the predicted structure of the gene transcripts after application of Flp and Cre (forming a 'Knockout-First, Post-Flp and Cre - Deletion, No Reporter' allele - more information on IKMC alleles can be found here). Click the 'view' button for each transcript to see the full prediction for that transcript.

Ensembl transcript id Ensembl Biotype Floxed transcript description Details
ENSMUST00000113119 protein_coding No protein product (NMD) view

Predicted translation: 

MGVDFDVKTFCHNLRATKPPYECPVETCRKVYKSYSGIEYHLYHYDHDSPPPPQQTPLRKHKKKGRQSRPANKQSPSPSE
VSQSPGREVMSYAQAQRMVEVDLHGRVHRISIFDNLDVVSEDEEAPEEAPENGSNKENTETPAATPKSGKHKNKEKRKDS
NHHHHSAPASAAPKLPEVVYRELEQDTPDAPPRPTSYYRYIEKSAEELDEEVEYDMDEEDYIWLDIMNERRKTEGVSPIP
QEIFEYLMDRLEKESYFESHNKGDPNALVDEDAVCCICNDGECQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRRCL
QSPSRAVDCALCPNKGGAFKQTDDGRWAHVVCALWIPEVCFANTVFLEPIDSIEHIPPARWKLTCYICKQRGSGACIQCH
KANCYTAFHVTCAQQAGLYMKMEPVRETGANGTSFSVRKTAYCDIHTPPGSARRLPALSHSEGEEEEDEEEDEGKSWSSE
KVKKAKAKSRIKMKKARKILAEKRAAAPVVSVPCIPPHRYPTT*

Ensembl Exon ID Pfam Domains WildType Floxed
ENSMUSE00000694357 UTR UTR
ENSMUSE00000349930 Enhancer_polycomb-like_N (93/149 aa) UTR + start codon + CDS UTR + start codon + CDS
ENSMUSE00000376062 Enhancer_polycomb-like_N (57/149 aa) CDS CDS
ENSMUSE00000196941 CDS Deleted
ENSMUSE00000196942 CDS Deleted
ENSMUSE00000196940 Bromodomain (23/81 aa) CDS Deleted
ENSMUSE00000196937 Bromodomain (58/81 aa) CDS CDS + stop codon + UTR
ENSMUSE00000469231 CDS
ENSMUSE00000468314 CDS
ENSMUSE00000556135 CDS
ENSMUSE00000474069 PWWP (15/84 aa) CDS
ENSMUSE00000507217 PWWP (52/84 aa) CDS
ENSMUSE00001009335 PWWP (18/84 aa) CDS + stop codon + UTR
Legend: in frame deleted frameshifted
ENSMUST00000113117 protein_coding No protein product (NMD) view

Predicted translation: 

MGVDFDVKTFCHNLRATKPPYECPVETCRKVYKSYSGIEYHLYHYDHDSPPPPQQTPLRKHKKKGRQSRPANKQSPSPSE
VSQSPGREVMSYAQAQRMVEVDLHGRVHRISIFDNLDVVSEDEEAPEEAPENGSNKENTETPAATPKSGKHKNKEKRKDS
NHHHHSAPASAAPKLPEVVYRELEQDTPDAPPRPTSYYRYIEKSAEELDEEVEYDMDEEDYIWLDIMNERRKTEGVSPIP
QEIFEYLMDRLEKESYFESHNKGDPNALVDEDAVCCICNDGECQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRRCL
QSPSRAVDCALCPNKGGAFKQTDDGRWAHVVCALWIPEVCFANTVFLEPIDSIEHIPPARWKLTCYICKQRGSGACIQCH
KANCYTAFHVTCAQQAGLYMKMEPVRETGANGTSFSVRKTAYCDIHTPPGSARRLPALSHSEGEEEEDEEEDEGKSWSSE
KVKKAKAKSRIKMKKARKILAEKRAAAPVVSVPCIPPHRYPTT*

Ensembl Exon ID Pfam Domains WildType Floxed
ENSMUSE00000694349 UTR UTR
ENSMUSE00000349930 Enhancer_polycomb-like_N (93/149 aa) UTR + start codon + CDS UTR + start codon + CDS
ENSMUSE00000376062 Enhancer_polycomb-like_N (57/149 aa) CDS CDS
ENSMUSE00000196941 CDS Deleted
ENSMUSE00000196942 CDS Deleted
ENSMUSE00000196940 Bromodomain (23/81 aa) CDS Deleted
ENSMUSE00000196937 Bromodomain (58/81 aa) CDS CDS + stop codon + UTR
ENSMUSE00000694361 CDS
ENSMUSE00000468314 CDS
ENSMUSE00000556135 CDS
ENSMUSE00000474069 PWWP (15/84 aa) CDS
ENSMUSE00000507217 PWWP (52/84 aa) CDS
ENSMUSE00000694347 PWWP (18/84 aa) CDS + stop codon + UTR
Legend: in frame deleted frameshifted
ENSMUST00000113121 protein_coding No protein product (NMD) view

Predicted translation: 

MGVDFDVKTFCHNLRATKPPYECPVETCRKVYKSYSGIEYHLYHYDHDSPPPPQQTPLRKHKKKGRQSRPANKQSPSPSE
VSQSPGREVMSYAQAQRMVEVDLHGRVHRISIFDNLDVVSEDEEAPEEAPENGSNKENTETPAATPKSGKHKNKEKRKDS
NHHHHSAPASAAPKLPEVVYRELEQDTPDAPPRPTSYYRYIEKSAEELDEEVEYDMDEEDYIWLDIMNERRKTEGVSPIP
QEIFEYLMDRLEKESYFESHNKGDPNALVDEDAVCCICNDGECQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRRCL
QSPSRAVDCALCPNKGGAFKQTDDGRWAHVVCALWIPEVCFANTVFLEPIDSIEHIPPARWKLTCYICKQRGSGACIQCH
KANCYTAFHVTCAQQAGLYMKMEPVRETGANGTSFSVRKTAYCDIHTPPGSARRLPALSHSEGEEEEDEEEDEGKSWSSE
KVKKAKAKSRIKMKKARKILAEKRAAAPVVSVPCIPPHRYPTT*

Ensembl Exon ID Pfam Domains WildType Floxed
ENSMUSE00000694357 UTR UTR
ENSMUSE00000349930 Enhancer_polycomb-like_N (93/149 aa) UTR + start codon + CDS UTR + start codon + CDS
ENSMUSE00000376062 Enhancer_polycomb-like_N (57/149 aa) CDS CDS
ENSMUSE00000196941 CDS Deleted
ENSMUSE00000196942 CDS Deleted
ENSMUSE00000196940 Bromodomain (23/81 aa) CDS Deleted
ENSMUSE00000196937 Bromodomain (58/81 aa) CDS CDS + stop codon + UTR
ENSMUSE00000469231 CDS
ENSMUSE00000468314 CDS
ENSMUSE00000556135 CDS
ENSMUSE00000694360 CDS
ENSMUSE00000694359 PWWP (15/84 aa) CDS
ENSMUSE00000507217 PWWP (52/84 aa) CDS
ENSMUSE00000694356 PWWP (18/84 aa) CDS + stop codon + UTR
Legend: in frame deleted frameshifted
ENSMUST00000113122 protein_coding No protein product (NMD) view

Predicted translation: 

MGVDFDVKTFCHNLRATKPPYECPVETCRKVYKSYSGIEYHLYHYDHDSPPPPQQTPLRKHKKKGRQSRPANKQSPSPSE
VSQSPGREVMSYAQAQRMVEVDLHGRVHRISIFDNLDVVSEDEEAPEEAPENGSNKENTETPAATPKSGKHKNKEKRKDS
NHHHHSAPASAAPKLPEVVYRELEQDTPDAPPRPTSYYRYIEKSAEELDEEVEYDMDEEDYIWLDIMNERRKTEGVSPIP
QEIFEYLMDRLEKESYFESHNKGDPNALVDEDAVCCICNDGECQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRRCL
QSPSRAVDCALCPNKGGAFKQTDDGRWAHVVCALWIPEVCFANTVFLEPIDSIEHIPPARWKLTCYICKQRGSGACIQCH
KANCYTAFHVTCAQQAGLYMKMEPVRETGANGTSFSVRKTAYCDIHTPPGSARRLPALSHSEGEEEEDEEEDEGKSWSSE
KVKKAKAKSRIKMKKARKILAEKRAAAPVVSVPCIPPHRYPTT*

Ensembl Exon ID Pfam Domains WildType Floxed
ENSMUSE00000694362 UTR UTR
ENSMUSE00000349930 Enhancer_polycomb-like_N (93/149 aa) UTR + start codon + CDS UTR + start codon + CDS
ENSMUSE00000376062 Enhancer_polycomb-like_N (57/149 aa) CDS CDS
ENSMUSE00000196941 CDS Deleted
ENSMUSE00000196942 CDS Deleted
ENSMUSE00000196940 Bromodomain (23/81 aa) CDS Deleted
ENSMUSE00000196937 Bromodomain (58/81 aa) CDS CDS + stop codon + UTR
ENSMUSE00000694361 CDS
ENSMUSE00000468314 CDS
ENSMUSE00000556135 CDS
ENSMUSE00000694360 CDS
ENSMUSE00000694359 PWWP (15/84 aa) CDS
ENSMUSE00000507217 PWWP (52/84 aa) CDS
ENSMUSE00000694358 PWWP (18/84 aa) CDS + stop codon + UTR
Legend: in frame deleted frameshifted
ENSMUST00000131594 retained_intron Target region does not overlap transcript
ENSMUST00000138737 retained_intron Target region does not overlap transcript
ENSMUST00000124530 retained_intron No analysis available: incomplete transcript
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ES Cell Clones With Conditional Potential

Genome Browsers: Ensembl (mouse) - UCSC (mouse)
Tools: Southern Blot Tool - LRPCR Genotyping Primers
ES Cell Clone Targeting Vector Allele Allele Type Parental ES Cell Line Genbank File Mouse QC Data
order EPD0069_1_G06 PGS00046_A_G08 Brpf1tm1a(EUCOMM)Wtsi Knockout-First - Reporter Tagged Insertion (Promotorless Cassette) JM8.N4 view yes view    ( about )
Production Centre
5' Screen not attempted LoxP Screen pass 3' Screen pass
Loss of WT Allele (LOA) - Vector Integrity -
Distribution Centre
Karyotype - Copy Number - Cells Thawed Correctly -
5' LR-PCR - 5' SR-PCR - 3' SR-PCR -
LOA - LOXP - LACZ -
Chromosome 1 - Chromosome 8a - Chromosome 8b -
Chromosome 11a - Chromosome 11b - Chromosome Y -
User/Mouse Clinic
Southern Blot pass Map Test pass Karyotype -
TV Backbone Assay - 5' LR-PCR - Loss of WT Allele (LOA) -
Neo Count (qPCR) - LacZ SR-PCR - 5' Cassette Integrity -
Neo SR-PCR - Mutant Specific SR-PCR - LoxP Confirmation -
3' LR-PCR -
order EPD0069_1_G04 PGS00046_A_G08 Brpf1tm1a(EUCOMM)Wtsi Knockout-First - Reporter Tagged Insertion (Promotorless Cassette) JM8.N4 view no view    ( about )
Production Centre
5' Screen not attempted LoxP Screen pass 3' Screen pass
Loss of WT Allele (LOA) - Vector Integrity -
Distribution Centre
Karyotype - Copy Number - Cells Thawed Correctly -
5' LR-PCR - 5' SR-PCR - 3' SR-PCR -
LOA - LOXP - LACZ -
Chromosome 1 - Chromosome 8a - Chromosome 8b -
Chromosome 11a - Chromosome 11b - Chromosome Y -
User/Mouse Clinic
Southern Blot - Map Test - Karyotype -
TV Backbone Assay - 5' LR-PCR - Loss of WT Allele (LOA) -
Neo Count (qPCR) - LacZ SR-PCR - 5' Cassette Integrity -
Neo SR-PCR - Mutant Specific SR-PCR - LoxP Confirmation -
3' LR-PCR -
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Targeting Vectors

Genome Browsers: Ensembl (mouse) - UCSC (mouse)
Tools: LRPCR Genotyping Primers
Design ID Vector Type Targeting Vector Cassette Backbone Genbank File
order 43377 Knockout-First - Reporter Tagged Insertion (Promotorless Cassette) PG00046_A_2_G08 L1L2_gt2 L3L4_pZero_DTA_kan view
order 43377 Knockout-First - Reporter Tagged Insertion (Promotorless Cassette) PGS00046_A_G08 L1L2_gt2 L3L4_pZero_DTA_kan view
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Intermediate Vectors

Design ID Vector Type Intermediate Vector
43377 Knockout-First - Reporter Tagged Insertion PCS00046_A_G08