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SENP3 RNA-Seq in K562



SENP3      CRISPR in K562      Control:

General Information
RBPSENP3
Cell_LineK562
MethodCRISPR
Exp_NameSENP3-BGKcLV44-K562
ENCODE_series_ID
Batch_IDBGKcLV44
Pool IDPool-241015
Local_Set_Nameset75
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1SENP3-BGKcLV44-61
Rep2SENP3-BGKcLV44-62
CN1NT-BGKcLV44-1
CN2NT-BGKcLV44-2
Rep1_qPCR60.1
Rep2_qPCR63.5
Rep1_WB70.9
Rep2_WB63.6
Antibody Cat#5591S
Antibody Lot#lot # 1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1608




Experiment Information (Status: Sequenced)
BGKcLV44-61BGKcLV44-62
idx00
TRCN#_or_BGC#BGC#0001187BGC#0001187
shRNA_or_gRNA_sequenceCCCCGACTCAAGTCAGGTGGCCCCGACTCAAGTCAGGTGG
PAMAGGAGG
NameSENP3_85SENP3_85
Sample_IDBGKcLV44-61BGKcLV44-62
transduction_Date7/30/247/30/24
daysD6D6
RBP_nameSENP3SENP3
qPCR_result60.163.5
Ave_qPCR61.8
RT-qPCR_primer-Fggagacctggtcatggacac
RT-qPCR_primer-Raccccatcataacccttggt
protein_conc41774711
WB_result70.963.6
Ave_WB67.2
WB_DONE_date8/14/24
MW75kd
IP
antibody_Cat#5591Slot # 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID59425943




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
SENP3Product_ID: 5591S
Lot_ID: 1
Source: Cell Signaling Technology
Target Name: SENP3-human		 SENP3-HEPG2-CRISPR-5591S.png<br>Caption: Western blot following CRISPR against SENP3 in HepG2 whole cell lysate using SENP3 specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against SENP3. SENP3 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.
 CST_5591S_1_SENP3.png<br>Caption: IP-WB analysis of 5591S whole cell lysate using the SENP3 specific antibody, 5591S. 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 SENP3-specific antibody, 5591S. 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.
 SENP3-K562-CRISPR-5591S.png<br>Caption: Western blot following CRISPR against SENP3 in K562 whole cell lysate using SENP3 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against SENP3. SENP3 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGKcLV44-61BGKcLV44-62
Sample_IDBGKcLV44-61BGKcLV44-62
Sample Name
Sample NameSENP3-BGKcLV44-61SENP3-BGKcLV44-62
RBPSENP3SENP3
Cell_LineK562K562
Exp UID
StatusSequencedSequenced
Status_date2024-11-062024-11-06
ProjectENCORE2ENCORE2
Note
ID1360813609




Library-Prep Information
BGKcLV44-61BGKcLV44-62
Sample #3738
Sample NameSENP3-BGKcLV44-61SENP3-BGKcLV44-62
Sample_Name_Alias
Index Well PositionE10F10
Index_tableIDT_UniqueDualIndex_96_V2IDT_UniqueDualIndex_96_V2
LibPrep_date2024-10-102024-10-10
Lib_IDLib-241010Lib-241010
Tecan_Location
Tecan
Tecan_date
Size_bp297291
Peak_Molarity86.3073.30
libSampleQC_DNA_WellDNA_Library_set75/set1/E10.pngDNA_Library_set75/set1/F10.png
RIN9.910.0
libSample_RNA_WellRNA_Library_set75/set1/E4.pngRNA_Library_set75/set1/F4.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-10-152024-10-15
Sample_IDBGKcLV44-61BGKcLV44-62
RBPSENP3SENP3
Batch_IDBGKcLV44BGKcLV44
WB_result70.90063.600
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID45964597




Sequencing Information
BGKcLV44-61BGKcLV44-62
Sample_IDBGKcLV44-61BGKcLV44-62
Sample NameSENP3-BGKcLV44-61SENP3-BGKcLV44-62
Pool IDPool-241015Pool-241015
LocalServer_folderset75set75
total_reads51,035,84554,083,828
total_aligned_reads48,900,40551,489,872
unique_aligned_reads45,346,60747,879,070
percent_uniqueAligned0.888520.88528
correlation_replicates0.9953190.995319
spikein_reads65,85862,568
percent_spikeins0.001290.00116
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID33073308




Data Submission Information
DCC submission information was not avaliable




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