Transcript: Human NM_001308201.1

Homo sapiens SS18 subunit of BAF chromatin remodeling complex (SS18), transcript variant 3, mRNA.

Source:
NCBI, updated 2019-07-06
Taxon:
Homo sapiens (human)
Gene:
SS18 (6760)
Length:
3415
CDS:
123..1310

Additional Resources:

NCBI RefSeq record:
NM_001308201.1
NBCI Gene record:
SS18 (6760)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the coding regions of this 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 NM_001308201.1, 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 TRCN0000337696 TGAGGATTCCTCACAACATTA pLKO_005 995 CDS 100% 13.200 18.480 N Ss18 n/a
2 TRCN0000337697 GTTATCAGCAACCGTCGTATC pLKO_005 949 CDS 100% 6.000 8.400 N Ss18 n/a
3 TRCN0000304836 TCCTGAACAAGGCTACGATAG pLKO_005 968 CDS 100% 6.000 8.400 N Ss18 n/a
4 TRCN0000108562 TGGTCATAATGATTACGGTTA pLKO.1 932 CDS 100% 4.050 5.670 N Ss18 n/a
5 TRCN0000119079 GAAGGCATGAACCAGCAATAT pLKO.1 903 CDS 100% 13.200 10.560 N SS18 n/a
6 TRCN0000119080 CCTGGACCCAATCAACTCAAT pLKO.1 465 CDS 100% 4.950 3.960 N SS18 n/a
7 TRCN0000108561 CCTTATGAGGATTCCTCACAA pLKO.1 990 CDS 100% 4.950 3.960 N Ss18 n/a
8 TRCN0000359419 GGGAATGATGGGTCAAGTTAA pLKO_005 749 CDS 100% 13.200 9.240 N SS18 n/a
9 TRCN0000119078 GTCAGCAGTATGGAGGATATA pLKO.1 1204 CDS 100% 13.200 9.240 N SS18 n/a
10 TRCN0000337695 TATTACCCTGATGGTCATAAT pLKO_005 921 CDS 100% 13.200 9.240 N Ss18 n/a
11 TRCN0000359495 GATGCCTGGGCCTAACCATAT pLKO_005 431 CDS 100% 10.800 7.560 N SS18 n/a
12 TRCN0000359497 TGGTATACCTTGCTACAATAG pLKO_005 226 CDS 100% 10.800 7.560 N SS18 n/a
13 TRCN0000119077 CCTCCTTCTCAGCAATACAAT pLKO.1 681 CDS 100% 5.625 3.938 N SS18 n/a
14 TRCN0000108564 CCATGAATATGCCTTCAAGTA pLKO.1 499 CDS 100% 4.950 3.465 N Ss18 n/a
15 TRCN0000316422 CCATGAATATGCCTTCAAGTA pLKO_005 499 CDS 100% 4.950 3.465 N Ss18 n/a
16 TRCN0000119081 GCAGATGTTGCACACAAACTT pLKO.1 206 CDS 100% 5.625 3.375 N SS18 n/a
17 TRCN0000304895 ATTACTACGAAGGAGGAAACT pLKO_005 1012 CDS 100% 4.950 3.465 N Ss18 n/a
18 TRCN0000162795 CTTCCAAAGTGCTGGGATTAT pLKO.1 3179 3UTR 100% 13.200 6.600 Y SLC48A1 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 NM_001308201.1, 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_07004 pDONR223 100% 94.4% 94.2% None 0_1ins69;170C>T n/a
2 ccsbBroad304_07004 pLX_304 0% 94.4% 94.2% V5 0_1ins69;170C>T n/a
3 TRCN0000467495 TCTGGGGAAACTTTGTTATGCGTC pLX_317 30.5% 94.4% 94.2% V5 0_1ins69;170C>T n/a
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