NUDT21 RNA-Seq in 293T

Experiment Information (Status: Released)

	BG293LV06-3	BG293LV06-4
idx	0	0
TRCN#_or_BGC#	TRCN0000272630	TRCN0000272630
shRNA_or_gRNA_sequence	CCGGTGTACCCTCTTACCAATTATACTCGAGTATAATTGGTAAGAGGGTACATTTTTG	CCGGTGTACCCTCTTACCAATTATACTCGAGTATAATTGGTAAGAGGGTACATTTTTG
PAM
Name	NUDT21/CPSF5	NUDT21/CPSF5
Sample_ID	BG293LV06-3	BG293LV06-4
transduction_Date	9/5/24	9/5/24
days	D4	D4
RBP_name	NUDT21	NUDT21
qPCR_result	93.7	92.7
Ave_qPCR	93.2
RT-qPCR_primer-F
RT-qPCR_primer-R
protein_conc	0	0
WB_result
Ave_WB
WB_DONE_date
MW
IP
antibody_Cat#
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM	0	0
Rep2_TPM	0	0
Action	Ready	Ready
Library_start_date
repeat_library
Note
ID	12138	12139

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV06-3	BG293LV06-4
Sample_ID	BG293LV06-3	BG293LV06-4
Sample Name
Sample Name	NUDT21-BG293LV06-3	NUDT21-BG293LV06-4
RBP	NUDT21	NUDT21
Cell_Line	293T	293T
Exp UID
Status	Released	Released
Status_date	2025-04-21	2025-04-21
Project	ENCORE2	ENCORE2
Note
ID	13440	13441

Library-Prep
Sequencing

Library-Prep Information

	BG293LV06-3	BG293LV06-4
Sample #	7	8
Sample Name	NUDT21-BG293LV06-3	NUDT21-BG293LV06-4
Sample_Name_Alias
Index Well Position	G01	H01
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2024-09-25	2024-09-25
Lib_ID	Lib-240925B	Lib-240925B
Tecan_Location
Tecan
Tecan_date
Size_bp	268	283
Peak_Molarity	65.50	48.80
libSampleQC_DNA_Well	DNA_Library_set71/set1/G1.png	DNA_Library_set71/set1/H1.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set71/set1/G1.png	RNA_Library_set71/set1/H1.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-09-30	2024-09-30
Sample_ID	BG293LV06-3	BG293LV06-4
RBP	NUDT21	NUDT21
Batch_ID	BG293LV06	BG293LV06
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4432	4433

Sequencing Information

	BG293LV06-3	BG293LV06-4
Sample_ID	BG293LV06-3	BG293LV06-4
Sample Name	NUDT21-BG293LV06-3	NUDT21-BG293LV06-4
Pool ID	Pool-240930	Pool-240930
LocalServer_folder	set71	set71
total_reads	31,723,213	26,145,049
total_aligned_reads	26,683,483	22,264,575
unique_aligned_reads	24,817,651	20,814,591
percent_uniqueAligned	0.78232	0.79612
correlation_replicates	0.949594	0.949594
spikein_reads	94,692	96,732
percent_spikeins	0.00298	0.00370
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	3001	3002

Data Submission Information DCC submission information was not avaliable

File Information

file_name	file_path	file_format	output_type	assay_type	lab	Sample ID	platform	read_length	run_type	paired_end	assembly	genome_annotation	derived_from	controlled_by	Project	FILE_ID
NUDT21-BG293LV06-3_S7_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3001	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1merged_S1_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29345
NUDT21-BG293LV06-3_S7_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3001	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1merged_S1_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29409
NUDT21-BG293LV06-3_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3001					GRCh38	V40	NUDT21-BG293LV06-3_S7_L002_R1_001.filtered.trimmed.paired.fastq.gz,NUDT21-BG293LV06-3_S7_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29474
NUDT21-BG293LV06-3_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3001					GRCh38	V40	NUDT21-BG293LV06-3_Aligned.sortedByCoord.out.bam		ENCORE2	29538
NUDT21-BG293LV06-3_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3001					GRCh38	V40	NUDT21-BG293LV06-3_Aligned.sortedByCoord.out.bam		ENCORE2	29602
NUDT21-BG293LV06-3_Signal.Unique.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3001					GRCh38	V40	NUDT21-BG293LV06-3_Aligned.sortedByCoord.out.bam		ENCORE2	29666
NUDT21-BG293LV06-3_quant.sf	ENCODE_DATA/set71/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3001					GRCh38	V40	NUDT21-BG293LV06-3_S7_L002_R1_001.filtered.trimmed.paired.fastq.gz,NUDT21-BG293LV06-3_S7_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29730
NUDT21-BG293LV06-4_S8_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3002	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1merged_S1_L002_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29346
NUDT21-BG293LV06-4_S8_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set71/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3002	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1merged_S1_L002_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2merged_S2_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29410
NUDT21-BG293LV06-4_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3002					GRCh38	V40	NUDT21-BG293LV06-4_S8_L002_R1_001.filtered.trimmed.paired.fastq.gz,NUDT21-BG293LV06-4_S8_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29475
NUDT21-BG293LV06-4_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3002					GRCh38	V40	NUDT21-BG293LV06-4_Aligned.sortedByCoord.out.bam		ENCORE2	29539
NUDT21-BG293LV06-4_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3002					GRCh38	V40	NUDT21-BG293LV06-4_Aligned.sortedByCoord.out.bam		ENCORE2	29603
NUDT21-BG293LV06-4_Signal.Unique.strand-.bw	ENCODE_DATA/set71/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3002					GRCh38	V40	NUDT21-BG293LV06-4_Aligned.sortedByCoord.out.bam		ENCORE2	29667
NUDT21-BG293LV06-4_quant.sf	ENCODE_DATA/set71/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3002					GRCh38	V40	NUDT21-BG293LV06-4_S8_L002_R1_001.filtered.trimmed.paired.fastq.gz,NUDT21-BG293LV06-4_S8_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29731