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PRKRA RNA-Seq in HepG2



PRKRA      CRISPR in HepG2      Control:

General Information
RBPPRKRA
Cell_LineHepG2
MethodCRISPR
Exp_NamePRKRA-BGHcLV43-HepG2
ENCODE_series_ID
Batch_IDBGHcLV43
Pool IDPool-240723
Local_Set_Nameset74
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1PRKRA-BGHcLV43-43
Rep2PRKRA-BGHcLV43-44
CN1NT-BGHcLV43-1
CN2NT-BGHcLV43-2
Rep1_qPCR46.1
Rep2_qPCR36.7
Rep1_WB88.6
Rep2_WB86.9
Antibody Cat#13490S
Antibody Lot#lot # 1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1585




Experiment Information (Status: Sequenced)
BGHcLV43-43BGHcLV43-44
idx14111412
TRCN#_or_BGC#BGC#0001173BGC#0001173
shRNA_or_gRNA_sequenceGATGTACTTGGCATTCCTTGGATGTACTTGGCATTCCTTG
PAMAGGAGG
NamePRKRA_74PRKRA_74
Sample_IDBGHcLV43-43BGHcLV43-44
transduction_Date6/6/246/6/24
daysD6D6
RBP_namePRKRAPRKRA
qPCR_result46.136.7
Ave_qPCR41.4
RT-qPCR_primer-Fttccaagcaaccaaagaacc
RT-qPCR_primer-Rtccagccatgatgaatagcc
protein_conc24592480
WB_result88.686.9
Ave_WB87.8
WB_DONE_date6/17/24
MW30kd
IP
antibody_Cat#13490Slot # 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID76167617




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
PRKRAProduct_ID: 13490S
Lot_ID: 1
Source: Cell Signaling Technology
Target Name: PRKRA-human		 PRKRA-HEPG2-CRISPR-13490S.png<br>Caption: Western blot following CRISPR against PRKRA in HepG2 whole cell lysate using PRKRA specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against PRKRA. PRKRA protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.
 CST_13490S_1_PRKRA.png<br>Caption: IP-WB analysis of 13490S whole cell lysate using the PRKRA specific antibody, 13490S. 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 PRKRA-specific antibody, 13490S. 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.
 PRKRA-K562-CRISPR-13490S.png<br>Caption: Western blot following CRISPR against PRKRA in K562 whole cell lysate using PRKRA specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against PRKRA. PRKRA protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGHcLV43-43BGHcLV43-44
Sample_IDBGHcLV43-43BGHcLV43-44
Sample Name
Sample NamePRKRA-BGHcLV43-43PRKRA-BGHcLV43-44
RBPPRKRAPRKRA
Cell_LineHepG2HepG2
Exp UID
StatusSequencedSequenced
Status_date2024-10-272024-10-27
ProjectENCORE2ENCORE2
Note
ID1326013261




Library-Prep Information
BGHcLV43-43BGHcLV43-44
Sample #3334
Sample NamePRKRA-BGHcLV43-43PRKRA-BGHcLV43-44
Sample_Name_Alias
Index Well PositionA10B10
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2024-07-222024-07-22
Lib_IDLib-240722Lib-240722
Tecan_Location
Tecan
Tecan_date
Size_bp296299
Peak_Molarity93.0092.90
libSampleQC_DNA_WellDNA_Library_set74/set1/A5.pngDNA_Library_set74/set1/B5.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set74/set1/E10.pngRNA_Library_set74/set1/F10.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-07-232024-07-23
Sample_IDBGHcLV43-43BGHcLV43-44
RBPPRKRAPRKRA
Batch_IDBGHcLV43BGHcLV43
WB_result88.60086.900
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID43924393




Sequencing Information
BGHcLV43-43BGHcLV43-44
Sample_IDBGHcLV43-43BGHcLV43-44
Sample NamePRKRA-BGHcLV43-43PRKRA-BGHcLV43-44
Pool IDPool-240723Pool-240723
LocalServer_folderset74set74
total_reads38,353,64948,084,650
total_aligned_reads34,253,36944,655,117
unique_aligned_reads32,159,35742,006,226
percent_uniqueAligned0.838500.87359
correlation_replicates0.9990360.999036
spikein_reads23,70017,946
percent_spikeins0.000620.00037
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID32593260




Data Submission Information
DCC submission information was not avaliable




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