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SEC24D RNA-Seq in HepG2



SEC24D      CRISPR in HepG2      Control:

General Information
RBPSEC24D
Cell_LineHepG2
MethodCRISPR
Exp_NameSEC24D-BGHcLV43-HepG2
ENCODE_series_ID
Batch_IDBGHcLV43
Pool IDPool-240723
Local_Set_Nameset74
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1SEC24D-BGHcLV43-49
Rep2SEC24D-BGHcLV43-50
CN1NT-BGHcLV43-1
CN2NT-BGHcLV43-2
Rep1_qPCR61.7
Rep2_qPCR60.4
Rep1_WB63.8
Rep2_WB64.9
Antibody Cat#14687S
Antibody Lot#lot # 1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1588




Experiment Information (Status: Sequenced)
BGHcLV43-49BGHcLV43-50
idx14171418
TRCN#_or_BGC#BGC#0001185BGC#0001185
shRNA_or_gRNA_sequenceTTGGGGGCCACCGCCACTAGTTGGGGGCCACCGCCACTAG
PAMGGGGGG
NameSEC24D_92SEC24D_92
Sample_IDBGHcLV43-49BGHcLV43-50
transduction_Date6/6/246/6/24
daysD6D6
RBP_nameSEC24DSEC24D
qPCR_result61.760.4
Ave_qPCR61.1
RT-qPCR_primer-Fagaatggagctcatgccact
RT-qPCR_primer-Rgatgccacattgttgacagg
protein_conc41474281
WB_result63.864.9
Ave_WB64.3
WB_DONE_date6/17/24
MW115kd
IP
antibody_Cat#14687Slot # 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID76247625




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
SEC24DProduct_ID: 14687S
Lot_ID: 1
Source: Cell Signaling Technology
Target Name: SEC24D-human		 SEC24D-HEPG2-CRISPR-14687S.png<br>Caption: Western blot following CRISPR against SEC24D in HepG2 whole cell lysate using SEC24D specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against SEC24D. SEC24D protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.
 CST_14687S_1_SEC24D.png<br>Caption: IP-WB analysis of 14687S whole cell lysate using the SEC24D specific antibody, 14687S. 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 SEC24D-specific antibody, 14687S. 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.
 SEC24D-K562-CRISPR-14687S.png<br>Caption: Western blot following CRISPR against SEC24D in K562 whole cell lysate using SEC24D specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against SEC24D. SEC24D protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGHcLV43-49BGHcLV43-50
Sample_IDBGHcLV43-49BGHcLV43-50
Sample Name
Sample NameSEC24D-BGHcLV43-49SEC24D-BGHcLV43-50
RBPSEC24DSEC24D
Cell_LineHepG2HepG2
Exp UID
StatusSequencedSequenced
Status_date2024-10-272024-10-27
ProjectENCORE2ENCORE2
Note
ID1326613267




Library-Prep Information
BGHcLV43-49BGHcLV43-50
Sample #3940
Sample NameSEC24D-BGHcLV43-49SEC24D-BGHcLV43-50
Sample_Name_Alias
Index Well PositionG10H10
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2024-07-222024-07-22
Lib_IDLib-240722Lib-240722
Tecan_Location
Tecan
Tecan_date
Size_bp289290
Peak_Molarity72.7067.60
libSampleQC_DNA_WellDNA_Library_set74/set1/G5.pngDNA_Library_set74/set1/H5.png
RIN10.010.0
libSample_RNA_WellRNA_Library_set74/set1/C11.pngRNA_Library_set74/set1/D11.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-07-232024-07-23
Sample_IDBGHcLV43-49BGHcLV43-50
RBPSEC24DSEC24D
Batch_IDBGHcLV43BGHcLV43
WB_result63.80064.900
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID43984399




Sequencing Information
BGHcLV43-49BGHcLV43-50
Sample_IDBGHcLV43-49BGHcLV43-50
Sample NameSEC24D-BGHcLV43-49SEC24D-BGHcLV43-50
Pool IDPool-240723Pool-240723
LocalServer_folderset74set74
total_reads42,606,32859,442,874
total_aligned_reads39,912,02056,129,392
unique_aligned_reads37,488,59452,701,315
percent_uniqueAligned0.879880.88659
correlation_replicates0.9985130.998513
spikein_reads35,54442,844
percent_spikeins0.000830.00072
original_ReadLength101101
QC_StatusReadyToSubmitReadyToSubmit
ID32653266




Data Submission Information
DCC submission information was not avaliable




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