Transcript: Human XM_011544517.2

PREDICTED: Homo sapiens inhibitor of nuclear factor kappa B kinase subunit beta (IKBKB), transcript variant X2, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
IKBKB (3551)
Length:
3510
CDS:
185..2602

Additional Resources:

NCBI RefSeq record:
XM_011544517.2
NBCI Gene record:
IKBKB (3551)

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.

Clone ID Target Seq Vector PAM Seq Cut Position Cut % of CDS Length Exon On Target Score[?] Other Matching Genes Orig. Target Gene[?] Notes Addgene[?]
1 BRDN0001145640 GCCATGGAGTACTGCCAAGG pXPR_003 AGG 299 12% 4 0.3294 IKBKB IKBKB 76088
2 BRDN0001145616 TGAGGGCCACACATTGGACA pXPR_003 TGG 1147 47% 12 0.1923 IKBKB IKBKB 76089
3 BRDN0001148638 GCTGGTTCATATCTTGAACA pXPR_003 TGG 946 39% 11 0.1647 IKBKB IKBKB 76091
4 BRDN0001145579 TTTGCAGGCATTCAAAAGTG pXPR_003 CGG 702 29% 9 0.1039 IKBKB IKBKB 76090
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shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human XM_011544517.2, 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 TRCN0000381300 GTATTTCAGACGGCAAGTTAA pLKO_005 1293 CDS 100% 13.200 18.480 N IKBKB n/a
2 TRCN0000018919 CCATGATGAATCTCCTCCGAA pLKO.1 1545 CDS 100% 2.640 3.696 N IKBKB n/a
3 TRCN0000380934 ACAGCGAGCAAACCGAGTTTG pLKO_005 1674 CDS 100% 10.800 7.560 N IKBKB n/a
4 TRCN0000380993 ATCATCCATCGGGATCTAAAG pLKO_005 605 CDS 100% 10.800 7.560 N IKBKB n/a
5 TRCN0000381893 CATGAATGCCTCTCGACTTAG pLKO_005 2209 CDS 100% 10.800 7.560 N IKBKB n/a
6 TRCN0000380744 GGCAGTCTTTGCACATCATTC pLKO_005 710 CDS 100% 10.800 7.560 N IKBKB n/a
7 TRCN0000018916 CCAGCCAAGAAGAGTGAAGAA pLKO.1 2285 CDS 100% 4.950 3.465 N IKBKB n/a
8 TRCN0000329736 CCAGCCAAGAAGAGTGAAGAA pLKO_005 2285 CDS 100% 4.950 3.465 N IKBKB n/a
9 TRCN0000018918 CGGAAGTACCTGAACCAGTTT pLKO.1 497 CDS 100% 4.950 3.465 N IKBKB n/a
10 TRCN0000353621 CGGAAGTACCTGAACCAGTTT pLKO_005 497 CDS 100% 4.950 3.465 N IKBKB n/a
11 TRCN0000018917 GCTGGTTCATATCTTGAACAT pLKO.1 1114 CDS 100% 0.495 0.347 N IKBKB n/a
12 TRCN0000329735 GCTGGTTCATATCTTGAACAT pLKO_005 1114 CDS 100% 0.495 0.347 N IKBKB n/a
13 TRCN0000353566 CAAGGAGAACAGAGGTTAATA pLKO_005 647 CDS 100% 15.000 9.000 N IKBKB 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_011544517.2, 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 TRCN0000489474 CATCAGAGCTTCTTGCTCATCAGT pLX_317 17.5% 92.5% 90% V5 (many diffs) n/a
2 TRCN0000487969 TCACTCTGCATCGTATCCGTTGCT pLX_317 13.6% 92.5% 90% V5 (not translated due to prior stop codon) (many diffs) n/a
3 ccsbBroadEn_00841 pDONR223 100% 49.2% 47.7% None (many diffs) n/a
4 ccsbBroad304_00841 pLX_304 53.3% 49.2% 47.7% V5 (many diffs) n/a
5 TRCN0000477990 GGTACCTCTGAAAACAACGAACAT pLX_317 32.8% 49.2% 47.7% V5 (many diffs) n/a
6 ccsbBroadEn_11616 pDONR223 100% 2.8% 2.3% None (many diffs) n/a
7 ccsbBroad304_11616 pLX_304 0% 2.8% 2.3% V5 (many diffs) n/a
8 TRCN0000467678 CCTCCCCTCACACCTCGTCAAAAC pLX_317 100% 2.8% 2.3% V5 (many diffs) n/a
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