Transcript: Human XM_011543828.3

PREDICTED: Homo sapiens BLK proto-oncogene, Src family tyrosine kinase (BLK), transcript variant X4, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
BLK (640)
Length:
1738
CDS:
603..1640

Additional Resources:

NCBI RefSeq record:
XM_011543828.3
NBCI Gene record:
BLK (640)

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 BRDN0001146701 CAGGTCCCGATCATTCATAG pXPR_003 CGG 214 21% 4 0.7259 BLK BLK 75749
2 BRDN0001149400 ACTCGGGCCACAAAGTTACT pXPR_003 GGG 330 32% 5 0.5552 BLK BLK 75752
3 BRDN0001149130 GCTTCTTGCTCCAATCAACA pXPR_003 AGG 427 41% 6 0.1302 BLK BLK 75751
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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_011543828.3, 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 TRCN0000010086 GCCGATCAAAGAGAAGGACAA pLKO.1 641 CDS 100% 4.050 5.670 N BLK n/a
2 TRCN0000199781 GTCTGGACAATTCGGCGAAGT pLKO.1 1346 CDS 100% 4.050 5.670 N BLK n/a
3 TRCN0000197266 GAGCTGATCAAGCACTATAAG pLKO.1 1116 CDS 100% 13.200 9.240 N BLK n/a
4 TRCN0000415915 ATGACTACACCGCTATGAATG pLKO_005 802 CDS 100% 10.800 7.560 N BLK n/a
5 TRCN0000195414 CCTGGATGAAGACAAGCATTT pLKO.1 767 CDS 100% 10.800 7.560 N BLK n/a
6 TRCN0000010087 CCAGGTCACTCGTCACAGGAA pLKO.1 892 CDS 100% 0.880 0.616 N BLK n/a
7 TRCN0000023413 CTGGTTGTCTTCAACCACCTT pLKO.1 723 CDS 100% 0.264 0.185 N Blk 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_011543828.3, 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_14548 pDONR223 0% 62.7% 51.1% None (many diffs) n/a
2 ccsbBroad304_14548 pLX_304 0% 62.7% 51.1% V5 (many diffs) n/a
3 TRCN0000472782 AGTGGTTAACCAAGATATCAGGGT pLX_317 28.7% 62.7% 51.1% V5 (many diffs) n/a
4 ccsbBroadEn_05892 pDONR223 100% 62.7% 51.1% None (many diffs) n/a
5 ccsbBroad304_05892 pLX_304 0% 62.7% 51.1% V5 (many diffs) n/a
6 TRCN0000471449 ACTTCGACACCTAAGATTACCTCT pLX_317 24.4% 62.7% 51.1% V5 (many diffs) n/a
7 TRCN0000488579 AATTTACAAGTCACCAACTCTCGA pLX_317 16.7% 62.6% 51% V5 (not translated due to prior stop codon) (many diffs) n/a
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