Transcript: Human XM_011515742.1

PREDICTED: Homo sapiens stromal antigen 3 (STAG3), transcript variant X5, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
STAG3 (10734)
Length:
4347
CDS:
295..3975

Additional Resources:

NCBI RefSeq record:
XM_011515742.1
NBCI Gene record:
STAG3 (10734)

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 XM_011515742.1, 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 TRCN0000230168 CCGCAGCCAGCTAGTAGATTT pLKO_005 2292 CDS 100% 13.200 18.480 N STAG3 n/a
2 TRCN0000137596 CGTGATTTCCTTAGGCCACTT pLKO.1 2749 CDS 100% 4.050 5.670 N STAG3 n/a
3 TRCN0000230167 ATCCAATCTTGCGGATGTAAA pLKO_005 706 CDS 100% 13.200 9.240 N STAG3 n/a
4 TRCN0000230169 GTGATCTACTTCTCATCTTTA pLKO_005 2705 CDS 100% 13.200 9.240 N STAG3 n/a
5 TRCN0000230170 TGATTCCCAGGAGGATCATTT pLKO_005 2859 CDS 100% 13.200 9.240 N STAG3 n/a
6 TRCN0000134797 CAGGAGGATCATTTACAGATA pLKO.1 2866 CDS 100% 4.950 3.465 N STAG3 n/a
7 TRCN0000138271 CCAGCCTTGACTCTTGTCTAT pLKO.1 2524 CDS 100% 4.950 3.465 N STAG3 n/a
8 TRCN0000135354 GCTGATGAAGACACTGACTTT pLKO.1 430 CDS 100% 4.950 3.465 N STAG3 n/a
9 TRCN0000135820 CATCCAATCTTGCGGATGTAA pLKO.1 705 CDS 100% 0.563 0.394 N STAG3 n/a
10 TRCN0000219103 CACCTAACAGAGCAGTTTAAT pLKO_005 781 CDS 100% 15.000 9.000 N STAG3 n/a
11 TRCN0000135230 CAAGAGCATCAAGAGGAGATT pLKO.1 1165 CDS 100% 4.950 2.970 N STAG3 n/a
12 TRCN0000121694 CCTCACCGACAGCTATTTAAA pLKO.1 1311 CDS 100% 15.000 7.500 Y STAG3L3 n/a
13 TRCN0000062692 GCTATCTGCATTGAGGAAATT pLKO.1 1258 CDS 100% 13.200 6.600 Y STAG3L1 n/a
14 TRCN0000139360 CAGCTTCTGCTGTCCTTCTTT pLKO.1 1729 CDS 100% 5.625 2.813 Y STAG3L3 n/a
15 TRCN0000139995 GAGATCCGTGCTATCTGCATT pLKO.1 1249 CDS 100% 4.950 2.475 Y STAG3L3 n/a
16 TRCN0000062691 GCAAAGCTACAGCACGTCTTT pLKO.1 1290 CDS 100% 4.950 2.475 Y STAG3L1 n/a
17 TRCN0000122408 GCAAAGCTACAGCACGTCTTT pLKO.1 1290 CDS 100% 4.950 2.475 Y STAG3L3 n/a
18 TRCN0000138869 GCAAAGCTACAGCACGTCTTT pLKO.1 1290 CDS 100% 4.950 2.475 Y STAG3 n/a
19 TRCN0000137748 GCAGGATTTCTGGAGCTTGTT pLKO.1 676 CDS 100% 4.950 2.475 Y STAG3 n/a
20 TRCN0000139256 CTGCATGATAAGCACCGAGAA pLKO.1 1348 CDS 100% 4.050 2.025 Y STAG3L3 n/a
21 TRCN0000140844 CAGAGGACTTTCTTCCAGCTT pLKO.1 1714 CDS 100% 2.640 1.320 Y STAG3L3 n/a
22 TRCN0000165549 GATGCAGGATTTCTGGAGCTT pLKO.1 673 CDS 100% 2.640 1.320 Y STAG3L4 n/a
23 TRCN0000167398 GAATTTCTGTACTGGAAACTT pLKO.1 1630 CDS 100% 5.625 2.813 Y STAG3L2 n/a
24 TRCN0000062690 CGCTGCTTACTTAGTAGACAA pLKO.1 1773 CDS 100% 4.950 2.475 Y STAG3L1 n/a
25 TRCN0000167941 CGCTGCTTACTTAGTAGACAA pLKO.1 1773 CDS 100% 4.950 2.475 Y STAG3L2 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 XM_011515742.1, 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_07670 pDONR223 100% 99.8% 99.7% None (many diffs) n/a
2 ccsbBroad304_07670 pLX_304 0% 99.8% 99.7% V5 (many diffs) n/a
3 TRCN0000476860 CATCCTAGTGCATTCGAGCCGTGA pLX_317 11.7% 99.8% 99.7% V5 (many diffs) n/a
4 ccsbBroadEn_03986 pDONR223 100% 11.6% 9.1% None (many diffs) n/a
5 ccsbBroad304_03986 pLX_304 0% 11.6% 9.1% V5 (many diffs) n/a
6 TRCN0000469741 AGGAAACCCGCCGAGAAACTTGGA pLX_317 75.9% 11.6% 9.1% V5 (many diffs) n/a
7 ccsbBroadEn_10171 pDONR223 100% 9.7% 9.2% None (many diffs) n/a
8 ccsbBroad304_10171 pLX_304 0% 9.7% 9.2% V5 (many diffs) n/a
9 TRCN0000474301 GGCATGATAACGCGACACGTACAC pLX_317 60.6% 9.7% 9.2% V5 (many diffs) n/a
10 ccsbBroadEn_13704 pDONR223 100% 6% 5.5% None (many diffs) n/a
11 ccsbBroad304_13704 pLX_304 0% 6% 5.5% V5 (many diffs) n/a
12 ccsbBroadEn_12038 pDONR223 100% 5.9% 4.9% None (many diffs) n/a
13 ccsbBroad304_12038 pLX_304 0% 5.9% 4.9% V5 (many diffs) n/a
14 TRCN0000471778 CAAGTTTGACTAGCTTGAAGTGGC pLX_317 100% 5.9% 4.9% V5 (many diffs) n/a
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