Transcript: Human NR_125980.2

Homo sapiens SS18L1 subunit of BAF chromatin remodeling complex (SS18L1), transcript variant 3, non-coding RNA.

Source:
NCBI, updated 2019-07-31
Taxon:
Homo sapiens (human)
Gene:
SS18L1 (26039)
Length:
4116
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
NR_125980.2
NBCI Gene record:
SS18L1 (26039)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the exonic sequence of this non-coding transcript.

No results found.

shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human NR_125980.2, regardless of what transcript they were originally designed to target. For example, this list can include shRNAs that were originally designed to target: (i) a different isoform or obsolete version of this transcript (as annotated by NCBI), (ii) a transcript of an orthologous gene (in this collection, generally human-to-mouse or mouse-to-human), or (iii) a transcript of a different gene (from the same or different taxon).

Clone ID Target Seq Vector Match Position Match Region[?] SDR Match %[?] Intrinsic Score[?] Adjusted Score[?] Matches Other Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000218383 CAACAGTACTCAGCATATTAA pLKO_005 3639 3UTR 100% 15.000 12.000 N SS18L1 n/a
2 TRCN0000229636 AGTCCACGCAGCACTACTATG pLKO_005 1321 3UTR 100% 10.800 8.640 N SS18L1 n/a
3 TRCN0000107150 CCAACATGAATTGTTTGTGAA pLKO.1 3401 3UTR 100% 4.950 3.465 N SS18L1 n/a
4 TRCN0000107151 CGCAGACTCCAACCAGAACAT pLKO.1 623 3UTR 100% 4.950 3.465 N SS18L1 n/a
5 TRCN0000229634 CTCGGACCAACATCAACATGC pLKO_005 955 3UTR 100% 4.050 2.835 N SS18L1 n/a
6 TRCN0000229635 GGAGTACTATGGCGAGCAGTA pLKO_005 1181 3UTR 100% 4.050 2.835 N SS18L1 n/a
7 TRCN0000107152 CCAGTCGTCCATCGCCATGAT pLKO.1 1061 3UTR 100% 1.650 1.155 N SS18L1 n/a
8 TRCN0000107154 CCACCACCTGATCCAGTGCAT pLKO.1 321 3UTR 100% 0.880 0.616 N SS18L1 n/a
9 TRCN0000107153 CCCGGCTACCAGCAAGGCCAA pLKO.1 1497 3UTR 100% 0.000 0.000 N SS18L1 n/a
10 TRCN0000229637 ATGGAAATTACCAGCAGTAAG pLKO_005 1603 3UTR 100% 10.800 6.480 N SS18L1 n/a
11 TRCN0000222574 CGCCTGTAATCCCAGCACTTT pLKO.1 2235 3UTR 100% 4.950 2.475 Y ERAP2 n/a
12 TRCN0000201573 CCAACATCAACATGCAGTCTA pLKO.1 961 3UTR 100% 4.950 2.970 N Ss18l1 n/a
13 TRCN0000078113 GCCTGTAATCCCAGCACTTTA pLKO.1 2236 3UTR 100% 13.200 6.600 Y LIAS n/a
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shRNA constructs with at least a near match to this transcript

This list includes shRNAs that have at least a >84% (16 of 19 bases) SDR[?] match to the transcript NR_125980.2, regardless of what transcript they were originally designed to target. For example, this list can include shRNAs that were originally designed to target: (i) a different isoform or obsolete version of this transcript (as annotated by NCBI), (ii) a transcript of an orthologous gene (in this collection, generally human-to-mouse or mouse-to-human), or (iii) a transcript of a different gene (from the same or different taxon). NOTE: this download is a superset of the above result set.

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All ORF constructs matching this transcript

Clone ID DNA Barcode Vector Sequenced %[?] Nuc. Match %[?] Prot. Match %[?] Epitope Tag Match Diffs[?] Addgene[?]
1 ccsbBroadEn_15780 pDONR223 0% 28.8% None (many diffs) n/a
2 ccsbBroad304_15780 pLX_304 0% 28.8% V5 (many diffs) n/a
3 TRCN0000480057 AGTTACGAGTCCAATCGTATCTGG pLX_317 29.7% 28.8% V5 (many diffs) n/a
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