SNRPA RNA-Seq in 293T

Experiment Information (Status: Released)

	BG293LV06-109	BG293LV06-110
idx	0	0
TRCN#_or_BGC#	TRCN0000006610	TRCN0000006610
shRNA_or_gRNA_sequence	CCGGCCTCAATGAGAAGATCAAGAACTCGAGTTCTTGATCTTCTCATTGAGGTTTTT	CCGGCCTCAATGAGAAGATCAAGAACTCGAGTTCTTGATCTTCTCATTGAGGTTTTT
PAM
Name	SNRPA	SNRPA
Sample_ID	BG293LV06-109	BG293LV06-110
transduction_Date	9/5/24	9/5/24
days	D4	D4
RBP_name	SNRPA	SNRPA
qPCR_result	87.9	86.6
Ave_qPCR	87.3
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	12244	12245

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV06-109	BG293LV06-110
Sample_ID	BG293LV06-109	BG293LV06-110
Sample Name
Sample Name	SNRPA-BG293LV06-109B	SNRPA-BG293LV06-110B
RBP	SNRPA	SNRPA
Cell_Line	293T	293T
Exp UID
Status	Released	Released
Status_date	2025-04-21	2025-04-21
Project	ENCORE2	ENCORE2
Note
ID	13546	13547

Library-Prep
Sequencing

Library-Prep Information

	BG293LV06-109	BG293LV06-110
Sample #	109	110
Sample Name	SNRPA-BG293LV06-109B	SNRPA-BG293LV06-110B
Sample_Name_Alias
Index Well Position	E07	F07
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2024-10-02	2024-10-02
Lib_ID	Lib-241002	Lib-241002
Tecan_Location
Tecan
Tecan_date
Size_bp	279	279
Peak_Molarity	81.20	84.90
libSampleQC_DNA_Well	DNA_Library_set72/set1/E7.png	DNA_Library_set72/set1/F7.png
RIN	10.0	9.8
libSample_RNA_Well	RNA_Library_set72/set1/E7.png	RNA_Library_set72/set1/F7.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-10-04	2024-10-04
Sample_ID	BG293LV06-109	BG293LV06-110
RBP	SNRPA	SNRPA
Batch_ID	BG293LV06	BG293LV06
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix	B	B
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4534	4535

Sequencing Information

	BG293LV06-109	BG293LV06-110
Sample_ID	BG293LV06-109	BG293LV06-110
Sample Name	SNRPA-BG293LV06-109B	SNRPA-BG293LV06-110B
Pool ID	Pool-241004	Pool-241004
LocalServer_folder	set72	set72
total_reads	30,861,659	32,911,232
total_aligned_reads	27,831,921	30,467,591
unique_aligned_reads	26,047,974	28,547,598
percent_uniqueAligned	0.84402	0.86741
correlation_replicates	0.996384	0.996384
spikein_reads	95,868	102,402
percent_spikeins	0.00311	0.00311
original_ReadLength	101	101
QC_Status	Submitted	Submitted
ID	3103	3104

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
SNRPA-BG293LV06-109B_S61_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3103	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1Bmerged_S9_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29814
SNRPA-BG293LV06-109B_S61_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3103	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1Bmerged_S9_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29886
SNRPA-BG293LV06-109B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3103					GRCh38	V40	SNRPA-BG293LV06-109B_S61_L001_R1_001.filtered.trimmed.paired.fastq.gz,SNRPA-BG293LV06-109B_S61_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29958
SNRPA-BG293LV06-109B_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3103					GRCh38	V40	SNRPA-BG293LV06-109B_Aligned.sortedByCoord.out.bam		ENCORE2	30030
SNRPA-BG293LV06-109B_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3103					GRCh38	V40	SNRPA-BG293LV06-109B_Aligned.sortedByCoord.out.bam		ENCORE2	30102
SNRPA-BG293LV06-109B_Signal.Unique.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3103					GRCh38	V40	SNRPA-BG293LV06-109B_Aligned.sortedByCoord.out.bam		ENCORE2	30174
SNRPA-BG293LV06-109B_Signal.Unique.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3103					GRCh38	V40	SNRPA-BG293LV06-109B_Aligned.sortedByCoord.out.bam		ENCORE2	30246
SNRPA-BG293LV06-109B_quant.sf	ENCODE_DATA/set72/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3103					GRCh38	V40	SNRPA-BG293LV06-109B_S61_L001_R1_001.filtered.trimmed.paired.fastq.gz,SNRPA-BG293LV06-109B_S61_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30318
SNRPA-BG293LV06-110B_S62_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3104	NovaSeq6000	100	paired-ended	1				NT-BG293LV06-1Bmerged_S9_L001_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29815
SNRPA-BG293LV06-110B_S62_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set72/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3104	NovaSeq6000	100	paired-ended	2				NT-BG293LV06-1Bmerged_S9_L001_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV06-2Bmerged_S10_L001_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	29887
SNRPA-BG293LV06-110B_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3104					GRCh38	V40	SNRPA-BG293LV06-110B_S62_L001_R1_001.filtered.trimmed.paired.fastq.gz,SNRPA-BG293LV06-110B_S62_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	29959
SNRPA-BG293LV06-110B_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3104					GRCh38	V40	SNRPA-BG293LV06-110B_Aligned.sortedByCoord.out.bam		ENCORE2	30031
SNRPA-BG293LV06-110B_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3104					GRCh38	V40	SNRPA-BG293LV06-110B_Aligned.sortedByCoord.out.bam		ENCORE2	30103
SNRPA-BG293LV06-110B_Signal.Unique.strand-.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3104					GRCh38	V40	SNRPA-BG293LV06-110B_Aligned.sortedByCoord.out.bam		ENCORE2	30175
SNRPA-BG293LV06-110B_Signal.Unique.strand+.bw	ENCODE_DATA/set72/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3104					GRCh38	V40	SNRPA-BG293LV06-110B_Aligned.sortedByCoord.out.bam		ENCORE2	30247
SNRPA-BG293LV06-110B_quant.sf	ENCODE_DATA/set72/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3104					GRCh38	V40	SNRPA-BG293LV06-110B_S62_L001_R1_001.filtered.trimmed.paired.fastq.gz,SNRPA-BG293LV06-110B_S62_L001_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	30319