RBM33      CRISPR in K562      Control: NT-BGKcLV48-1,NT-BGKcLV48-2

General Information
RBPRBM33
Cell_LineK562
MethodCRISPR
Exp_NameRBM33-BGKcLV48-K562
ENCODE_series_ID
Batch_IDBGKcLV48
Pool IDPool-250822
Local_Set_Nameset79
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1RBM33-BGKcLV48-51
Rep2RBM33-BGKcLV48-52
CN1NT-BGKcLV48-1
CN2NT-BGKcLV48-2
Rep1_qPCR32.6
Rep2_qPCR14.7
Rep1_WB86.9
Rep2_WB85.8
Antibody Cat#A303-926A
Antibody Lot#LOT #1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1678




Experiment Information (Status: Sequenced)
BGKcLV48-51BGKcLV48-51BGKcLV48-52BGKcLV48-52
idx0000
TRCN#_or_BGC#BGC#0001362BGC#0001362BGC#0001362BGC#0001362
shRNA_or_gRNA_sequenceGGGCCCCGCGAGTGCCATGGGGGCCCCGCGAGTGCCATGGGGGCCCCGCGAGTGCCATGGGGGCCCCGCGAGTGCCATGG
PAMCGGCGGCGGCGG
NameRBM33_75RBM33_75RBM33_75RBM33_75
Sample_IDBGKcLV48-51BGKcLV48-51BGKcLV48-52BGKcLV48-52
transduction_Date4/15/254/15/254/15/254/15/25
daysD6D6D6D6
RBP_nameRBM33RBM33RBM33RBM33
qPCR_result32.632.614.714.7
Ave_qPCR23.723.7
RT-qPCR_primer-Factccctctccaggaccagtactccctctccaggaccagt
RT-qPCR_primer-Rggacttcgctgttccagaaaggacttcgctgttccagaaa
protein_conc2096209621112111
WB_result86.962.685.857.5
Ave_WB
WB_DONE_date5/8/255/28/25
MW130KD130KD
IP
antibody_Cat#A303-926AA303-927ALOT #1LOT #1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM0000
Rep2_TPM0000
ActionReadyReady
Library_start_date
repeat_library
Note
ID6197619961986200




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
RBM33Product_ID: A303-926A
Lot_ID: 1
Source: Bethyl Labs
Target Name: RBM33-human		 Bethyl_A303-926A_1_RBM33.png<br>Caption: IP-WB analysis of K562 whole cell lysate using the RBM33 specific antibody, A303-926A. Lanes 1 and 2 are 2.5% of five million whole cell lysate input and 50% of IP enrichment, respectively, using a normal IgG antibody. Lane 3 is 50% of IP enrichment from five million whole cell lysate using the RBM33-specific antibody, A303-926A. The same antibody was used to detect protein levels via Western blot. This antibody passes preliminary validation and will be further pursued for secondary validation. *NOTE* Protein sizes are taken from Genecards.org and are only estimates based on sequence. Actual protein size may differ based on protein characteristics and electrophoresis method used.
 RBM33-K562-CRISPR-A303-926A.png<br>Caption: Western blot following CRISPR against RBM33 in K562 whole cell lysate using RBM33 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against RBM33. RBM33 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.
RBM33Product_ID: A303-927A
Lot_ID: 1
Source: Bethyl Labs
Target Name: RBM33-human		 Bethyl_A303-927A_1_RBM33.png<br>Caption: IP-WB analysis of K562 whole cell lysate using the RBM33 specific antibody, A303-927A. Lanes 1 and 2 are 2.5% of five million whole cell lysate input and 50% of IP enrichment, respectively, using a normal IgG antibody. Lane 3 is 50% of IP enrichment from five million whole cell lysate using the RBM33-specific antibody, A303-927A. The same antibody was used to detect protein levels via Western blot. This antibody passes preliminary validation and will be further pursued for secondary validation. *NOTE* Protein sizes are taken from Genecards.org and are only estimates based on sequence. Actual protein size may differ based on protein characteristics and electrophoresis method used.
 RBM33-K562-CRISPR-A303-927A.png<br>Caption: Western blot following CRISPR against RBM33 in K562 whole cell lysate using RBM33 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against RBM33. RBM33 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGKcLV48-51BGKcLV48-51BGKcLV48-52BGKcLV48-52
Sample_IDBGKcLV48-51BGKcLV48-51BGKcLV48-52BGKcLV48-52
Sample Name
Sample NameRBM33-BGKcLV48-51RBM33-BGKcLV48-52
RBPRBM33RBM33RBM33RBM33
Cell_LineK562K562K562K562
Exp UID
StatusSequencedNotSatisfiedSequencedNotSatisfied
Status_date2025-10-022025-08-062025-10-022025-08-06
ProjectENCORE2ENCORE2ENCORE2ENCORE2
Note
ID14248143001424914301




Library-Prep Information
BGKcLV48-51BGKcLV48-52
Sample #1112
Sample NameRBM33-BGKcLV48-51RBM33-BGKcLV48-52
Sample_Name_Alias
Index Well PositionC02D02
Index_tableIDT_UniqueDualIndex_96_V2IDT_UniqueDualIndex_96_V2
LibPrep_date2025-08-182025-08-18
Lib_IDLib-250818Lib-250818
Tecan_Location
Tecan
Tecan_date
Size_bp279268
Peak_Molarity98.00114.00
libSampleQC_DNA_WellDNA_Library_set79/set1/C2.pngDNA_Library_set79/set1/D2.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set79/set1/C11.pngRNA_Library_set79/set1/D11.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2025-08-192025-08-19
Sample_IDBGKcLV48-51BGKcLV48-52
RBPRBM33RBM33
Batch_IDBGKcLV48BGKcLV48
WB_result86.90085.800
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID47564757




Sequencing Information
BGKcLV48-51BGKcLV48-52
Sample_IDBGKcLV48-51BGKcLV48-52
Sample NameRBM33-BGKcLV48-51RBM33-BGKcLV48-52
Pool IDPool-250822Pool-250822
LocalServer_folderset79set79
total_reads19,964,99421,437,715
total_aligned_reads17,271,79118,892,496
unique_aligned_reads16,020,16217,527,897
percent_uniqueAligned0.802410.81762
correlation_replicates0.9992410.999241
spikein_reads65,79076,688
percent_spikeins0.003300.00358
original_ReadLength151151
QC_StatusReadyToSubmitReadyToSubmit
ID34593460




Data Submission Information
DCC submission information was not avaliable




File Information
file_namefile_pathfile_formatoutput_typeassay_typelabSample IDplatformread_lengthrun_typepaired_endassemblygenome_annotationderived_fromcontrolled_byProjectNoteFILE_ID
RBM33-BGKcLV48-51_S175_L002_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set79/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3459NovaSeq6000100paired-ended1NT-BGKcLV48-1_S165_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV48-2_S166_L002_R1_001.filtered.trimmed.paired.fastq.gzENCORE232830
RBM33-BGKcLV48-51_S175_L002_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set79/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3459NovaSeq6000100paired-ended2NT-BGKcLV48-1_S165_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV48-2_S166_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE232852
RBM33-BGKcLV48-51_Aligned.sortedByCoord.out.bamENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab3459GRCh38V40RBM33-BGKcLV48-51_S175_L002_R1_001.filtered.trimmed.paired.fastq.gz,RBM33-BGKcLV48-51_S175_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE232874
RBM33-BGKcLV48-51_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3459GRCh38V40RBM33-BGKcLV48-51_Aligned.sortedByCoord.out.bamENCORE232896
RBM33-BGKcLV48-51_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3459GRCh38V40RBM33-BGKcLV48-51_Aligned.sortedByCoord.out.bamENCORE232918
RBM33-BGKcLV48-51_Signal.Unique.strand-.bwENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3459GRCh38V40RBM33-BGKcLV48-51_Aligned.sortedByCoord.out.bamENCORE232940
RBM33-BGKcLV48-51_Signal.Unique.strand+.bwENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3459GRCh38V40RBM33-BGKcLV48-51_Aligned.sortedByCoord.out.bamENCORE232962
RBM33-BGKcLV48-52_S176_L002_R1_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set79/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3460NovaSeq6000100paired-ended1NT-BGKcLV48-1_S165_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV48-2_S166_L002_R1_001.filtered.trimmed.paired.fastq.gzENCORE232831
RBM33-BGKcLV48-52_S176_L002_R2_001.filtered.trimmed.paired.fastq.gzENCODE_DATA/set79/fastq_trimmedfastqreadsknockdown followed by RNA-seqGraveley Lab3460NovaSeq6000100paired-ended2NT-BGKcLV48-1_S165_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BGKcLV48-2_S166_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE232853
RBM33-BGKcLV48-52_Aligned.sortedByCoord.out.bamENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_linksbamalignmentsknockdown followed by RNA-seqGraveley Lab3460GRCh38V40RBM33-BGKcLV48-52_S176_L002_R1_001.filtered.trimmed.paired.fastq.gz,RBM33-BGKcLV48-52_S176_L002_R2_001.filtered.trimmed.paired.fastq.gzENCORE232875
RBM33-BGKcLV48-52_Signal.UniqueMultiple.strand-.bwENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_linksbigWig-allminus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3460GRCh38V40RBM33-BGKcLV48-52_Aligned.sortedByCoord.out.bamENCORE232897
RBM33-BGKcLV48-52_Signal.UniqueMultiple.strand+.bwENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_linksbigWig+allplus strand signal of all readsknockdown followed by RNA-seqGraveley Lab3460GRCh38V40RBM33-BGKcLV48-52_Aligned.sortedByCoord.out.bamENCORE232919
RBM33-BGKcLV48-52_Signal.Unique.strand-.bwENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_linksbigWig-uniqueminus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3460GRCh38V40RBM33-BGKcLV48-52_Aligned.sortedByCoord.out.bamENCORE232941
RBM33-BGKcLV48-52_Signal.Unique.strand+.bwENCODE_DATA/set79/STAR_ENCORE2_trimmed_file_linksbigWig+uniqueplus strand signal of unique readsknockdown followed by RNA-seqGraveley Lab3460GRCh38V40RBM33-BGKcLV48-52_Aligned.sortedByCoord.out.bamENCORE232963