Transcript: Human XM_011523347.2

PREDICTED: Homo sapiens chromodomain helicase DNA binding protein 9 (CHD9), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CHD9 (80205)
Length:
11627
CDS:
324..9020

Additional Resources:

NCBI RefSeq record:
XM_011523347.2
NBCI Gene record:
CHD9 (80205)

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_011523347.2, 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 TRCN0000380957 AGCCTCCTTGACACCTATAAT pLKO_005 9384 3UTR 100% 15.000 21.000 N CHD9 n/a
2 TRCN0000230235 GATCAATCCAGGGACTATAAA pLKO_005 2868 CDS 100% 15.000 21.000 N CHD9 n/a
3 TRCN0000230237 GTGTAAAGTTAAGGGTTATAA pLKO_005 11272 3UTR 100% 15.000 21.000 N CHD9 n/a
4 TRCN0000218966 TGCATACCAGCGTACTAATAA pLKO_005 5693 CDS 100% 15.000 21.000 N CHD9 n/a
5 TRCN0000230236 TTCGTACGTGGACTGATATTA pLKO_005 3103 CDS 100% 15.000 21.000 N CHD9 n/a
6 TRCN0000382457 CCGAGCTCTCTTAGCATATTG pLKO_005 4919 CDS 100% 13.200 18.480 N CHD9 n/a
7 TRCN0000108086 GCTGGTAAATTGGTCCTTATT pLKO.1 3864 CDS 100% 13.200 18.480 N CHD9 n/a
8 TRCN0000218227 ATCACATCCTCAGGGTAATTA pLKO_005 1349 CDS 100% 15.000 10.500 N CHD9 n/a
9 TRCN0000381326 ATGACCTTGATCGGCAGTTTA pLKO_005 1624 CDS 100% 13.200 9.240 N CHD9 n/a
10 TRCN0000380419 CAATCTGAAGAAGAGGTTAAA pLKO_005 2280 CDS 100% 13.200 9.240 N CHD9 n/a
11 TRCN0000380165 CAATGATGTTGAGACGATTAA pLKO_005 3550 CDS 100% 13.200 9.240 N CHD9 n/a
12 TRCN0000381271 GAACGTGTTCAACTGATTAAC pLKO_005 8001 CDS 100% 13.200 9.240 N CHD9 n/a
13 TRCN0000108088 GCCTTATTTCAGGCCAATGAA pLKO.1 810 CDS 100% 5.625 3.938 N CHD9 n/a
14 TRCN0000108087 CCCAATAAACTAGATGTGAAT pLKO.1 7965 CDS 100% 4.950 3.465 N CHD9 n/a
15 TRCN0000108089 CGCATTGAACTTCTAAGGAAA pLKO.1 6102 CDS 100% 4.950 3.465 N CHD9 n/a
16 TRCN0000108085 GCAAGAAATATGACTTGCTTT pLKO.1 9703 3UTR 100% 0.495 0.347 N CHD9 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_011523347.2, 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_12681 pDONR223 100% 4.1% .8% None 1_241del;599_8694del n/a
2 ccsbBroad304_12681 pLX_304 0% 4.1% .8% V5 1_241del;599_8694del n/a
3 TRCN0000472257 TAGCGCCTGCTAATAAACTTCACC pLX_317 100% 4.1% .8% V5 1_241del;599_8694del n/a
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