IKMC Project Report - KOMP-CSD (ID: 45764)

R3hdm2 MGI:1919000 ENSMUSG00000025404 OTTMUSG00000035856
Pre-pipeline Designs Vectors ES Cells Mice
ES Cells - Targeting Confirmed

Mice no data available

Mutagenesis Predictions

This gene has 21 wild type transcripts, of which 16 are protein-coding. Following removal of the floxed region, 16 transcripts are predicted to produce a truncated protein product of which 5 may be subject to non-sense mediated decay (NMD). The original allele for this mutation is of type 'Knockout First, Reporter-tagged insertion with conditional potential'. 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
ENSMUST00000170336 protein_coding No protein product (NMD) view

Predicted translation: 

MSNSNTTQETLEIMKESEKKLVEESVNKNKFISKTPSKEDVEKEGEENGLRQETQRRTSSHGHARKRAKSNSKLKLVRSL
AVCEESSTPFVDGPLDTQDIIQLHISCPSDKEEEKSTKDVSEKEDKDKSKEKVPRKMLSRDSSQEYTDSTGIDLHEFLVN
TLKKNPRDRMMLLKLEQEILDFINDNNNQFKKFPQMTSYHRMLLHRVAAYFGMDHNVDQTGKAVIINKTSSTRIPEQRFS
EHIKDEKNTEFQQRFILKRDDASMDRDDNQTGQNGYLNDIRLSKEAFSSSSHKRRQIFRGNREGLSRTSSSRQSSTDSEL
KSLEPRPWSSTDSDGSVRSMRPPVTKASSFSGISILTRGDSIGSSKGGSAGRLSRPASPGPAALSTAGSVFSKLLSPGPS
ASLSAPAVQHGRRPQQPLWTNEP*

Ensembl Exon ID Pfam Domains WildType Floxed
ENSMUSE00000890897 UTR UTR
ENSMUSE00000478972 UTR + start codon + CDS UTR + start codon + CDS
ENSMUSE00000983477 CDS CDS
ENSMUSE00001063352 CDS CDS
ENSMUSE00001029647 CDS CDS
ENSMUSE00000985678 CDS CDS
ENSMUSE00001081907 R3H_ss-bd (11/53 aa) CDS CDS
ENSMUSE00001036776 R3H_ss-bd (43/53 aa) CDS CDS
ENSMUSE00001056491 CDS CDS
ENSMUSE00001091004 CDS CDS
ENSMUSE00000456179 CDS CDS
ENSMUSE00001092920 CDS CDS
ENSMUSE00001011756 CDS Deleted
ENSMUSE00001024297 CDS CDS
ENSMUSE00001089903 CDS CDS + stop codon + UTR
ENSMUSE00001005797 CDS
ENSMUSE00001072200 CDS
ENSMUSE00001033965 CDS
ENSMUSE00001049959 CDS
ENSMUSE00001045210 CDS
ENSMUSE00001071170 CDS
ENSMUSE00001046119 CDS
ENSMUSE00000983941 CDS
ENSMUSE00000904792 CDS + stop codon + UTR
Legend: in frame deleted frameshifted
ENSMUST00000064793 protein_coding No protein product (NMD) view

Predicted translation: 

MSNSNTTQETLEIMKESEKKLVEESVNKNKFISKTPSKEDVEKEGEENGLRQETQRRTSSHGHARKRAKSNSKLKLVRSL
AVCEESSTPFVDGPLDTQDIIQLHISCPSDKEEEKSTKDVSEKEDKDKSKEKVPRKMLSRDSSQEYTDSTGIDLHEFLVN
TLKKNPRDRMMLLKLEQEILDFINDNNNQFKKFPQMTSYHRMLLHRVAAYFGMDHNVDQTGKAVIINKTSSTRIPEQRFS
EHIKDEKNTEFQQRFILKRDDASMDRDDNQTGQNGYLNDIRLSKEAFSSSSHKRRQIFRGNREGLSRTSSSRQSSTDSEL
KSLEPRPWSSTDSDGSVRSMRPPVTKASSFSGISILTRGDSIGSSKGGSAGRLSRPASPGPAALSTAGSVFSKLLSPGRR
PQQPLWTNEP*

Ensembl Exon ID Pfam Domains WildType Floxed
ENSMUSE00000456218 UTR UTR
ENSMUSE00000478972 UTR + start codon + CDS UTR + start codon + CDS
ENSMUSE00000983477 CDS CDS
ENSMUSE00001063352 CDS CDS
ENSMUSE00001029647 CDS CDS
ENSMUSE00000985678 CDS CDS
ENSMUSE00001081907 R3H_ss-bd (11/53 aa) CDS CDS
ENSMUSE00001036776 R3H_ss-bd (43/53 aa) CDS CDS
ENSMUSE00001056491 CDS CDS
ENSMUSE00001091004 CDS CDS
ENSMUSE00000456179 CDS CDS
ENSMUSE00001092920 CDS CDS
ENSMUSE00001011756 CDS Deleted
ENSMUSE00000508283 CDS CDS
ENSMUSE00001089903 CDS CDS + stop codon + UTR
ENSMUSE00001005797 CDS
ENSMUSE00001072200 CDS
ENSMUSE00001033965 CDS
ENSMUSE00001049959 CDS
ENSMUSE00001045210 CDS
ENSMUSE00001071170 CDS
ENSMUSE00001046119 CDS
ENSMUSE00000983941 CDS
ENSMUSE00000455546 CDS + stop codon + UTR
Legend: in frame deleted frameshifted
ENSMUST00000166820 protein_coding No protein product (NMD) view

Predicted translation: 

MSNSNTTQETLEIMKESEKKLVEESVNKNKFISKTPSKEDVEKEGEENGLRQETQRRTSSHGHARKRAKSNSKLKLVRSL
AVCEESSTPFVDGPLDTQDIIQLHISCPSDKEEEKSTKDVSEKEDKDKSKEKVPRKMLSRDSSQEYTDSTGIDLHEFLVN
TLKKNPRDRMMLLKLEQEILDFINDNNNQFKKFPQMTSYHRMLLHRVAAYFGMDHNVDQTGKAVIINKTSSTRIPEQRFS
EHIKDEKNTEFQQRFILKRDDASMDRDDNQMRVPLQDGRRSKSIEEREEEYQRVRERIFARETGQNGYLNDIRLSKEAFS
SSSHKRRQIFRGNREGLSRTSSSRQSSTDSELKSLEPRPWSSTDSDGSVRSMRPPVTKASSFSGISILTRGDSIGSSKGG
SAGRLSRPASPGPAALSTAGSVFSKLLSPGPSASLSAPAVQHGRRPQQPLWTNEP*

Ensembl Exon ID Pfam Domains WildType Floxed
ENSMUSE00000668749 UTR UTR
ENSMUSE00000915206 UTR UTR
ENSMUSE00000456238 UTR UTR
ENSMUSE00000478972 UTR + start codon + CDS UTR + start codon + CDS
ENSMUSE00000983477 CDS CDS
ENSMUSE00001063352 CDS CDS
ENSMUSE00001029647 CDS CDS
ENSMUSE00000985678 CDS CDS
ENSMUSE00001081907 R3H_ss-bd (11/53 aa) CDS CDS
ENSMUSE00001036776 R3H_ss-bd (43/53 aa) CDS CDS
ENSMUSE00001056491 CDS CDS
ENSMUSE00001046809 CDS CDS
ENSMUSE00001091004 CDS CDS
ENSMUSE00000456179 CDS CDS
ENSMUSE00001092920 CDS CDS
ENSMUSE00001011756 CDS Deleted
ENSMUSE00001024297 CDS CDS
ENSMUSE00001089903 CDS CDS + stop codon + UTR
ENSMUSE00001005797 CDS
ENSMUSE00001072200 CDS
ENSMUSE00001033965 CDS
ENSMUSE00001049959 CDS
ENSMUSE00001045210 CDS
ENSMUSE00001071170 CDS
ENSMUSE00001046119 CDS
ENSMUSE00000983941 CDS
ENSMUSE00000878274 CDS + stop codon + UTR
Legend: in frame deleted frameshifted
ENSMUST00000077046 protein_coding No protein product (NMD) view

Predicted translation: 

MSNSNTTQETLEIMKESEKKLVEESVNKNKFISKTPSKEDVEKEGEENGLRQETQRRTSSHGHARKRAKSNSKLKLVRSL
AVCEESSTPFVDGPLDTQDIIQLHISCPSDKEEEKSTKDVSEKEDKDKSKEKVPRKMLSRDSSQEYTDSTGIDLHEFLVN
TLKKNPRDRMMLLKLEQEILDFINDNNNQFKKFPQMTSYHRMLLHRVAAYFGMDHNVDQTGKAVIINKTSSTRIPEQRFS
EHIKDEKNTEFQQRFILKRDDASMDRDDNQMRVPLQDGRRSKSIEEREEEYQRVRERIFARETGQNGYLNDIRLSKEAFS
SSSHKRRQIFRGNREGLSRTSSSRQSSTDSELKSLEPRPWSSTDSDGSVRSMRPPVTKASSFSGISILTRGDSIGSSKGG
SAGRLSRPASPGPAALSTAGSVFSKLLSPGPSASLSAPAVQHGRRPQQPLWTNEP*

Ensembl Exon ID Pfam Domains WildType Floxed
ENSMUSE00000915206 UTR UTR
ENSMUSE00000456238 UTR UTR
ENSMUSE00000478972 UTR + start codon + CDS UTR + start codon + CDS
ENSMUSE00000983477 CDS CDS
ENSMUSE00001063352 CDS CDS
ENSMUSE00001029647 CDS CDS
ENSMUSE00000985678 CDS CDS
ENSMUSE00001081907 R3H_ss-bd (11/53 aa) CDS CDS
ENSMUSE00001036776 R3H_ss-bd (43/53 aa) CDS CDS
ENSMUSE00001056491 CDS CDS
ENSMUSE00001046809 CDS CDS
ENSMUSE00001091004 CDS CDS
ENSMUSE00000456179 CDS CDS
ENSMUSE00001092920 CDS CDS
ENSMUSE00001011756 CDS Deleted
ENSMUSE00001024297 CDS CDS
ENSMUSE00001089903 CDS CDS + stop codon + UTR
ENSMUSE00001005797 CDS
ENSMUSE00001072200 CDS
ENSMUSE00001033965 CDS
ENSMUSE00001049959 CDS
ENSMUSE00001045210 CDS
ENSMUSE00001071170 CDS
ENSMUSE00001046119 CDS
ENSMUSE00000983941 CDS
ENSMUSE00000904814 CDS + stop codon + UTR
Legend: in frame deleted frameshifted
ENSMUST00000105250 protein_coding No protein product (NMD) view

Predicted translation: 

MSNSNTTQETLEIMKESEKKLVEESVNKNKFISKTPSKEDVEKEGEENGLRQETQRRTSSHGHARKRAKSNSKLKLVRSL
AVCEESSTPFVDGPLDTQDIIQLHISCPSDKEEEKSTKDVSEKEDKDKSKEKVPRKMLSRDSSQEYTDSTGIDLHEFLVN
TLKKNPRDRMMLLKLEQEILDFINDNNNQFKKFPQMTSYHRMLLHRVAAYFGMDHNVDQTGKAVIINKTSSTRIPEQRFS
EHIKDEKNTEFQQRFILKRDDASMDRDDNQMRVPLQDGRRSKSIEEREEEYQRVRERIFARETGQNGYLNDIRGNREGLS
RTSSSRQSSTDSELKSLEPRPWSSTDSDGSVRSMRPPVTKASSFSGISILTRGDSIGSSKGGSAGRLSRPASPGPAALST
AGSVFSKLLSPGPSASLSAPAVQHGRRPQQPLWTNEP*

Ensembl Exon ID Pfam Domains WildType Floxed
ENSMUSE00000915206 UTR UTR
ENSMUSE00000456238 UTR UTR
ENSMUSE00000478972 UTR + start codon + CDS UTR + start codon + CDS
ENSMUSE00000983477 CDS CDS
ENSMUSE00001063352 CDS CDS
ENSMUSE00001029647 CDS CDS
ENSMUSE00000985678 CDS CDS
ENSMUSE00001081907 R3H_ss-bd (11/53 aa) CDS CDS
ENSMUSE00001036776 R3H_ss-bd (43/53 aa) CDS CDS
ENSMUSE00001056491 CDS CDS
ENSMUSE00001046809 CDS CDS
ENSMUSE00001091004 CDS CDS
ENSMUSE00001092920 CDS CDS
ENSMUSE00001011756 CDS Deleted
ENSMUSE00001024297 CDS CDS
ENSMUSE00001089903 CDS CDS + stop codon + UTR
ENSMUSE00001005797 CDS
ENSMUSE00001072200 CDS
ENSMUSE00001033965 CDS
ENSMUSE00001049959 CDS
ENSMUSE00001045210 CDS
ENSMUSE00001071170 CDS
ENSMUSE00001046119 CDS
ENSMUSE00000983941 CDS
ENSMUSE00000904814 CDS + stop codon + UTR
Legend: in frame deleted frameshifted
ENSMUST00000105251 protein_coding No analysis available: incomplete transcript
ENSMUST00000105249 protein_coding No analysis available: incomplete transcript
ENSMUST00000164831 protein_coding No analysis available: incomplete transcript
ENSMUST00000171426 protein_coding Target region does not overlap transcript
ENSMUST00000168780 protein_coding Target region does not overlap transcript
ENSMUST00000171434 protein_coding Target region does not overlap transcript
ENSMUST00000170164 protein_coding Target region does not overlap transcript
ENSMUST00000111628 protein_coding Target region does not overlap transcript
ENSMUST00000169888 protein_coding No analysis available: incomplete transcript
ENSMUST00000168079 protein_coding Target region does not overlap transcript
ENSMUST00000165440 protein_coding Target region does not overlap transcript
ENSMUST00000164161 nonsense_mediated_decay No analysis available: incomplete transcript
ENSMUST00000171823 processed_transcript No analysis available: incomplete transcript
ENSMUST00000164469 retained_intron Target region does not overlap transcript
ENSMUST00000168268 retained_intron Target region does not overlap transcript
ENSMUST00000163794 retained_intron Target region does not overlap transcript
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ES Cell Clones Without Conditional Potential

Note: Mutations of type "Without Conditional Potential" are correctly targeted clones that have lost the 3' LoxP site. These mutations cannot be converted into conditional alleles.

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 EPD0257_2_A01 PRPGS00126_A_B07 R3hdm2tm1e(KOMP)Wtsi Targeted Non-Conditional (Promotor Driven Cassette) JM8A1.N3 view no view    ( about )
Production Centre
5' Screen pass LoxP Screen not confirmed 3' Screen not confirmed
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 -

Targeting Vectors

Genome Browsers: Ensembl (mouse) - UCSC (mouse)
Tools: LRPCR Genotyping Primers
Design ID Vector Type Targeting Vector Cassette Backbone Genbank File
order 119220 Knockout First, Reporter-tagged insertion with conditional potential (Promotor Driven Cassette) PG00126_Z_4_B07 L1L2_Pgk_P L3L4_pD223_DTA_spec view
order 119220 Knockout First, Reporter-tagged insertion with conditional potential (Promotor Driven Cassette) PG00126_Z_3_B07 L1L2_Pgk_P L3L4_pD223_DTA_spec view
order 119220 Knockout First, Reporter-tagged insertion with conditional potential (Promotor Driven Cassette) PG00126_Z_1_B07 L1L2_Pgk_P L3L4_pD223_DTA_spec view
order 119220 Knockout First, Reporter-tagged insertion with conditional potential (Promotor Driven Cassette) PG00126_Z_2_B07 L1L2_Pgk_P L3L4_pD223_DTA_spec view
order 119220 Knockout First, Reporter-tagged insertion with conditional potential (Promotor Driven Cassette) PG00126_Z_2_E08 L1L2_Pgk_P L3L4_pD223_DTA_spec view
order 119220 Knockout First, Reporter-tagged insertion with conditional potential (Promotor Driven Cassette) PRPGS00126_A_B07 L1L2_Pgk_P L3L4_pD223_DTA_spec view
show/hide more targeting vectors

Intermediate Vectors

Design ID Vector Type Intermediate Vector
119220 Knockout First, Reporter-tagged insertion with conditional potential PCS00126_B_B07