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CNOT3 RNA-Seq in HepG2



CNOT3      CRISPR in HepG2      Control:

General Information
RBPCNOT3
Cell_LineHepG2
MethodCRISPR
Exp_NameCNOT3-BGHcLV43-HepG2
ENCODE_series_ID
Batch_IDBGHcLV43
Pool IDPool-240723
Local_Set_Nameset74
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1CNOT3-BGHcLV43-9
Rep2CNOT3-BGHcLV43-10
CN1NT-BGHcLV43-1
CN2NT-BGHcLV43-2
Rep1_qPCR41.7
Rep2_qPCR28.9
Rep1_WB76.3
Rep2_WB75.1
Antibody Cat#13300S
Antibody Lot#lot # 1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1571




Experiment Information (Status: Sequenced)
BGHcLV43-9BGHcLV43-9BGHcLV43-9BGHcLV43-10BGHcLV43-10BGHcLV43-10
idx137700137800
TRCN#_or_BGC#BGC#0001121BGC#0001121BGC#0001121BGC#0001121BGC#0001121BGC#0001121
shRNA_or_gRNA_sequenceTGCCTCAAGAAGGTGTCCGATGCCTCAAGAAGGTGTCCGATGCCTCAAGAAGGTGTCCGATGCCTCAAGAAGGTGTCCGATGCCTCAAGAAGGTGTCCGATGCCTCAAGAAGGTGTCCGA
PAMGGGGGGGGGGGGGGGGGG
NameCNOT3_90CNOT3_90CNOT3_90CNOT3_90CNOT3_90CNOT3_90
Sample_IDBGHcLV43-9BGHcLV43-9BGHcLV43-9BGHcLV43-10BGHcLV43-10BGHcLV43-10
transduction_Date6/6/246/6/246/6/246/6/246/6/246/6/24
daysD6D6D6D6D6D6
RBP_nameCNOT3CNOT3CNOT3CNOT3CNOT3CNOT3
qPCR_result41.741.741.728.928.928.9
Ave_qPCR35.335.335.3
RT-qPCR_primer-Fgagggagcagcagcagtagtgagggagcagcagcagtagtgagggagcagcagcagtagt
RT-qPCR_primer-Rctgctcaaagccacctctgctgctcaaagccacctctgctgctcaaagccacctctg
protein_conc231723172317297029702970
WB_result76.374.968.875.163.760.4
Ave_WB75.769.364.6
WB_DONE_date6/28/247/23/247/23/24
MW105kd105kd105kd
IP
antibody_Cat#13300S40608SA302-156Alot # 1lot # 1lot # 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM000000
Rep2_TPM000000
ActionReadyReady
Library_start_date
repeat_library
Note
ID757675787580757775797581




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
CNOT3Product_ID: 13300S
Lot_ID: 1
Source: Cell Signaling Technology
Target Name: CNOT3-human		 CNOT3-HEPG2-CRISPR-13300S.png<br>Caption: Western blot following CRISPR against CNOT3 in HepG2 whole cell lysate using CNOT3 specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against CNOT3. CNOT3 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.
 CST_13300S_1_CNOT3.png<br>Caption: IP-WB analysis of 13300S whole cell lysate using the CNOT3 specific antibody, 13300S. 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 CNOT3-specific antibody, 13300S. 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.
 CNOT3-K562-CRISPR-13300S.png<br>Caption: Western blot following CRISPR against CNOT3 in K562 whole cell lysate using CNOT3 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against CNOT3. CNOT3 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGHcLV43-9BGHcLV43-10
Sample_IDBGHcLV43-9BGHcLV43-10
Sample Name
Sample NameCNOT3-BGHcLV43-9CNOT3-BGHcLV43-10
RBPCNOT3CNOT3
Cell_LineHepG2HepG2
Exp UID
StatusSequencedSequenced
Status_date2024-10-272024-10-27
ProjectENCORE2ENCORE2
Note
ID1323213233




Library-Prep Information
BGHcLV43-9BGHcLV43-10
Sample #56
Sample NameCNOT3-BGHcLV43-9CNOT3-BGHcLV43-10
Sample_Name_Alias
Index Well PositionE06F06
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2024-07-222024-07-22
Lib_IDLib-240722Lib-240722
Tecan_Location
Tecan
Tecan_date
Size_bp302300
Peak_Molarity94.0078.30
libSampleQC_DNA_WellDNA_Library_set74/set1/E1.pngDNA_Library_set74/set1/F1.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set74/set1/A7.pngRNA_Library_set74/set1/B7.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-07-232024-07-23
Sample_IDBGHcLV43-9BGHcLV43-10
RBPCNOT3CNOT3
Batch_IDBGHcLV43BGHcLV43
WB_result76.30075.100
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID43644365




Sequencing Information
BGHcLV43-9BGHcLV43-10
Sample_IDBGHcLV43-9BGHcLV43-10
Sample NameCNOT3-BGHcLV43-9CNOT3-BGHcLV43-10
Pool IDPool-240723Pool-240723
LocalServer_folderset74set74
total_reads35,568,21634,624,992
total_aligned_reads32,875,91532,244,232
unique_aligned_reads31,002,50630,369,965
percent_uniqueAligned0.871640.87711
correlation_replicates0.9995990.999599
spikein_reads7,68221,898
percent_spikeins0.000220.00063
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID32313232




Data Submission Information
DCC submission information was not avaliable




File Information
Files of the experiment was not avaliable in the database