SEC31A RNA-Seq in HepG2

Experiment Information (Status: Sequenced)

	BGHcLV52-77	BGHcLV52-78
idx	2025	2026
TRCN#_or_BGC#	BGC#0000849	BGC#0000849
shRNA_or_gRNA_sequence	AGTGGTGCTTCGATATTCAG	AGTGGTGCTTCGATATTCAG
PAM	TGG	TGG
Name	SEC31A_88	SEC31A_88
Sample_ID	BGHcLV52-77	BGHcLV52-78
transduction_Date	1/8/26	1/8/26
days	D6	D6
RBP_name	SEC31A	SEC31A
qPCR_result	53.4	53.8
Ave_qPCR	53.6
RT-qPCR_primer-F	atggcgtacagcaacctctt
RT-qPCR_primer-R	tttgttggcaaagactgcac
protein_conc	2889	2274
WB_result	78.7	81.2
Ave_WB
WB_DONE_date	2/2/26
MW	133kd
IP
antibody_Cat#	A302-336A	lot# 1
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	10214	10215

Western Blot Western Blot info was not avaliable

Experiment Status

	BGHcLV52-77	BGHcLV52-78
Sample_ID	BGHcLV52-77	BGHcLV52-78
Sample Name
Sample Name	SEC31A-BGHcLV52-77	SEC31A-BGHcLV52-78
RBP	SEC31A	SEC31A
Cell_Line	HepG2	HepG2
Exp UID
Status	Sequenced	Sequenced
Status_date	2026-09-16	2026-09-16
Project	ENCORE2	ENCORE2
Note
ID	14700	14701

Library-Prep
Sequencing

Library-Prep Information

	BGHcLV52-77	BGHcLV52-78
Sample #	33	34
Sample Name	SEC31A-BGHcLV52-77	SEC31A-BGHcLV52-78
Sample_Name_Alias
Index Well Position	A05	B05
Index_table	IDT_UniqueDualIndex_96_V2	IDT_UniqueDualIndex_96_V2
LibPrep_date	2026-05-18	2026-05-18
Lib_ID	Lib-260518	Lib-260518
Tecan_Location
Tecan
Tecan_date
Size_bp	285	285
Peak_Molarity	57.20	43.70
libSampleQC_DNA_Well	DNA_Library_set82/set1/A12.png	DNA_Library_set82/set1/B12.png
RIN	10.0	10.0
libSample_RNA_Well	RNA_Library_set82/set1/A5.png	RNA_Library_set82/set1/B5.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2026-05-21	2026-05-21
Sample_ID	BGHcLV52-77	BGHcLV52-78
RBP	SEC31A	SEC31A
Batch_ID	BGHcLV52	BGHcLV52
WB_result	78.700	81.200
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4872	4873

Sequencing Information

	BGHcLV52-77	BGHcLV52-78
Sample_ID	BGHcLV52-77	BGHcLV52-78
Sample Name	SEC31A-BGHcLV52-77	SEC31A-BGHcLV52-78
Pool ID	Pool-260528	Pool-260528
LocalServer_folder	set82	set82
total_reads	32,383,233	38,309,747
total_aligned_reads	27,894,557	32,450,158
unique_aligned_reads	26,440,511	30,714,583
percent_uniqueAligned	0.81649	0.80174
correlation_replicates	0.996557	0.996557
spikein_reads	65,276	111,954
percent_spikeins	0.00202	0.00292
original_ReadLength	151	151
QC_Status	ReadyToSubmit	ReadyToSubmit
ID	3573	3574

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
SEC31A-BGHcLV52-77_R1.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set82/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3573	NovaSeq6000	100	paired-ended	1				NT-BGHcLV52-1_R1.filtered.trimmed.paired.fastq.gz,NT-BGHcLV52-2_R1.filtered.trimmed.paired.fastq.gz	ENCORE2	33698
SEC31A-BGHcLV52-77_R2.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set82/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3573	NovaSeq6000	100	paired-ended	2				NT-BGHcLV52-1_R2.filtered.trimmed.paired.fastq.gz,NT-BGHcLV52-2_R2.filtered.trimmed.paired.fastq.gz	ENCORE2	33756
SEC31A-BGHcLV52-77_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3573					GRCh38	V40	SEC31A-BGHcLV52-77_R1.filtered.trimmed.paired.fastq.gz,SEC31A-BGHcLV52-77_R2.filtered.trimmed.paired.fastq.gz		ENCORE2	33816
SEC31A-BGHcLV52-77_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3573					GRCh38	V40	SEC31A-BGHcLV52-77_Aligned.sortedByCoord.out.bam		ENCORE2	33874
SEC31A-BGHcLV52-77_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3573					GRCh38	V40	SEC31A-BGHcLV52-77_Aligned.sortedByCoord.out.bam		ENCORE2	33932
SEC31A-BGHcLV52-77_Signal.Unique.strand-.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3573					GRCh38	V40	SEC31A-BGHcLV52-77_Aligned.sortedByCoord.out.bam		ENCORE2	33990
SEC31A-BGHcLV52-77_Signal.Unique.strand+.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3573					GRCh38	V40	SEC31A-BGHcLV52-77_Aligned.sortedByCoord.out.bam		ENCORE2	34048
SEC31A-BGHcLV52-77_quant.sf	ENCODE_DATA/set82/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3573					GRCh38	V40	SEC31A-BGHcLV52-77_R1.filtered.trimmed.paired.fastq.gz,SEC31A-BGHcLV52-77_R2.filtered.trimmed.paired.fastq.gz		ENCORE2	34106
SEC31A-BGHcLV52-78_R1.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set82/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3574	NovaSeq6000	100	paired-ended	1				NT-BGHcLV52-1_R1.filtered.trimmed.paired.fastq.gz,NT-BGHcLV52-2_R1.filtered.trimmed.paired.fastq.gz	ENCORE2	33699
SEC31A-BGHcLV52-78_R2.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set82/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	3574	NovaSeq6000	100	paired-ended	2				NT-BGHcLV52-1_R2.filtered.trimmed.paired.fastq.gz,NT-BGHcLV52-2_R2.filtered.trimmed.paired.fastq.gz	ENCORE2	33757
SEC31A-BGHcLV52-78_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	3574					GRCh38	V40	SEC31A-BGHcLV52-78_R1.filtered.trimmed.paired.fastq.gz,SEC31A-BGHcLV52-78_R2.filtered.trimmed.paired.fastq.gz		ENCORE2	33817
SEC31A-BGHcLV52-78_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3574					GRCh38	V40	SEC31A-BGHcLV52-78_Aligned.sortedByCoord.out.bam		ENCORE2	33875
SEC31A-BGHcLV52-78_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	3574					GRCh38	V40	SEC31A-BGHcLV52-78_Aligned.sortedByCoord.out.bam		ENCORE2	33933
SEC31A-BGHcLV52-78_Signal.Unique.strand-.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3574					GRCh38	V40	SEC31A-BGHcLV52-78_Aligned.sortedByCoord.out.bam		ENCORE2	33991
SEC31A-BGHcLV52-78_Signal.Unique.strand+.bw	ENCODE_DATA/set82/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	3574					GRCh38	V40	SEC31A-BGHcLV52-78_Aligned.sortedByCoord.out.bam		ENCORE2	34049
SEC31A-BGHcLV52-78_quant.sf	ENCODE_DATA/set82/salmon_ENCORE2_file_links	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	3574					GRCh38	V40	SEC31A-BGHcLV52-78_R1.filtered.trimmed.paired.fastq.gz,SEC31A-BGHcLV52-78_R2.filtered.trimmed.paired.fastq.gz		ENCORE2	34107