Transcript: Mouse XR_001782568.1

PREDICTED: Mus musculus syntaxin 3 (Stx3), transcript variant X2, misc_RNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Stx3 (20908)
Length:
3720
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_001782568.1
NBCI Gene record:
Stx3 (20908)

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 Mouse XR_001782568.1, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000110510 GCACCAATCAACTGTTTATTA pLKO.1 2358 3UTR 100% 15.000 21.000 N Stx3 n/a
2 TRCN0000381656 TAACGAACGGGTCCCTGTTTA pLKO_005 2499 3UTR 100% 13.200 18.480 N Stx3 n/a
3 TRCN0000340240 AGGAAACACGGCTCAACATTG pLKO_005 1273 3UTR 100% 10.800 15.120 N Stx3 n/a
4 TRCN0000110511 GCGGTCAAGTATCAGAGTGAA pLKO.1 2137 3UTR 100% 4.950 6.930 N Stx3 n/a
5 TRCN0000340238 GAACAGGGAGCACGGCAATAT pLKO_005 2427 3UTR 100% 13.200 10.560 N Stx3 n/a
6 TRCN0000340239 GATCATGATCTGCTGTATTAT pLKO_005 2178 3UTR 100% 15.000 10.500 N Stx3 n/a
7 TRCN0000351114 CATCCAACGGCAGCTTGAAAT pLKO_005 1598 3UTR 100% 13.200 9.240 N Stx3 n/a
8 TRCN0000381734 ACACGGACGAGGTTGAGATTG pLKO_005 1207 3UTR 100% 10.800 7.560 N Stx3 n/a
9 TRCN0000380739 AGGTGATGACAAAGTACAATG pLKO_005 1540 3UTR 100% 10.800 7.560 N Stx3 n/a
10 TRCN0000340167 TCTTCACTTCTGGGATCATTG pLKO_005 1681 3UTR 100% 10.800 7.560 N Stx3 n/a
11 TRCN0000110512 GCTTGAAATTACTGGCAAGAA pLKO.1 1610 3UTR 100% 4.950 3.465 N Stx3 n/a
12 TRCN0000110513 GACGAGGTTGAGATTGCCATT pLKO.1 1212 3UTR 100% 4.050 2.835 N Stx3 n/a
13 TRCN0000110514 CTGCTGTATTATCCTTGCCAT pLKO.1 2187 3UTR 100% 2.640 1.848 N Stx3 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 XR_001782568.1, 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_01616 pDONR223 100% 20.9% None (many diffs) n/a
2 ccsbBroad304_01616 pLX_304 0% 20.9% V5 (many diffs) n/a
3 TRCN0000474779 AGGTACGACCTCGACTATGCATTC pLX_317 11.4% 20.9% V5 (many diffs) n/a
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