Transcript: Human XM_005269107.4

PREDICTED: Homo sapiens SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 (SMARCD1), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
SMARCD1 (6602)
Length:
3266
CDS:
135..1559

Additional Resources:

NCBI RefSeq record:
XM_005269107.4
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 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_005269107.4, 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 1046 CDS 100% 4.950 6.930 N SMARCD1 n/a
2 TRCN0000343223 GATCTTTGAGTCTCAACGTAT pLKO_005 1046 CDS 100% 4.950 6.930 N SMARCD1 n/a
3 TRCN0000157022 GAGACGTGAATGTACGGTGTA pLKO.1 838 CDS 100% 4.050 5.670 N SMARCD1 n/a
4 TRCN0000157443 GTGCCGATACTTCTACTCCAA pLKO.1 1484 CDS 100% 2.640 3.696 N SMARCD1 n/a
5 TRCN0000153623 CGACTGCACCAATTCTTGATT pLKO.1 1582 3UTR 100% 5.625 4.500 N SMARCD1 n/a
6 TRCN0000343224 CGACTGCACCAATTCTTGATT pLKO_005 1582 3UTR 100% 5.625 4.500 N SMARCD1 n/a
7 TRCN0000153975 CATGAGGAAACGGCTAGATAT pLKO.1 617 CDS 100% 13.200 9.240 N SMARCD1 n/a
8 TRCN0000343222 CATGAGGAAACGGCTAGATAT pLKO_005 617 CDS 100% 13.200 9.240 N SMARCD1 n/a
9 TRCN0000154222 CAACAGGAGATTGCTACTCTA pLKO.1 1251 CDS 100% 4.950 3.465 N SMARCD1 n/a
10 TRCN0000158153 CCAGGCCTATATGGATCTCTT pLKO.1 566 CDS 100% 4.950 3.465 N SMARCD1 n/a
11 TRCN0000153952 CTTGGTGATTGAACTGGACAA pLKO.1 728 CDS 100% 4.050 2.835 N SMARCD1 n/a
12 TRCN0000352818 CTTGGTGATTGAACTGGACAA pLKO_005 728 CDS 100% 4.050 2.835 N SMARCD1 n/a
13 TRCN0000152066 CCATGAGACAATAGAAACCAT pLKO.1 1283 CDS 100% 3.000 2.100 N SMARCD1 n/a
14 TRCN0000156349 CCAGACAACCATCTGGTAGAA pLKO.1 762 CDS 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 XM_005269107.4, 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% 92% 92% None 531_532ins123 n/a
2 ccsbBroad304_01557 pLX_304 0% 92% 92% V5 531_532ins123 n/a
3 TRCN0000471633 AAGATACACTGCTCCTTTAGTTCA pLX_317 30.8% 92% 92% V5 531_532ins123 n/a
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