Transcript: Human XR_944684.2

PREDICTED: Homo sapiens SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 (SMARCD1), transcript variant X2, misc_RNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
SMARCD1 (6602)
Length:
2901
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_944684.2
NBCI Gene record:
SMARCD1 (6602)

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 XR_944684.2, 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 TRCN0000151662 GATCTTTGAGTCTCAACGTAT pLKO.1 1169 3UTR 100% 4.950 6.930 N SMARCD1 n/a
2 TRCN0000343223 GATCTTTGAGTCTCAACGTAT pLKO_005 1169 3UTR 100% 4.950 6.930 N SMARCD1 n/a
3 TRCN0000157022 GAGACGTGAATGTACGGTGTA pLKO.1 961 3UTR 100% 4.050 5.670 N SMARCD1 n/a
4 TRCN0000157443 GTGCCGATACTTCTACTCCAA pLKO.1 1607 3UTR 100% 2.640 3.696 N SMARCD1 n/a
5 TRCN0000153623 CGACTGCACCAATTCTTGATT pLKO.1 1705 3UTR 100% 5.625 4.500 N SMARCD1 n/a
6 TRCN0000343224 CGACTGCACCAATTCTTGATT pLKO_005 1705 3UTR 100% 5.625 4.500 N SMARCD1 n/a
7 TRCN0000153975 CATGAGGAAACGGCTAGATAT pLKO.1 617 3UTR 100% 13.200 9.240 N SMARCD1 n/a
8 TRCN0000343222 CATGAGGAAACGGCTAGATAT pLKO_005 617 3UTR 100% 13.200 9.240 N SMARCD1 n/a
9 TRCN0000154222 CAACAGGAGATTGCTACTCTA pLKO.1 1374 3UTR 100% 4.950 3.465 N SMARCD1 n/a
10 TRCN0000158153 CCAGGCCTATATGGATCTCTT pLKO.1 566 3UTR 100% 4.950 3.465 N SMARCD1 n/a
11 TRCN0000153952 CTTGGTGATTGAACTGGACAA pLKO.1 851 3UTR 100% 4.050 2.835 N SMARCD1 n/a
12 TRCN0000352818 CTTGGTGATTGAACTGGACAA pLKO_005 851 3UTR 100% 4.050 2.835 N SMARCD1 n/a
13 TRCN0000152066 CCATGAGACAATAGAAACCAT pLKO.1 1406 3UTR 100% 3.000 2.100 N SMARCD1 n/a
14 TRCN0000156349 CCAGACAACCATCTGGTAGAA pLKO.1 885 3UTR 100% 0.495 0.347 N SMARCD1 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_944684.2, 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_01557 pDONR223 100% 53.2% None 1_134del;1680_2901del n/a
2 ccsbBroad304_01557 pLX_304 0% 53.2% V5 1_134del;1680_2901del n/a
3 TRCN0000471633 AAGATACACTGCTCCTTTAGTTCA pLX_317 30.8% 53.2% V5 1_134del;1680_2901del n/a
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