Transcript: Mouse XM_006528483.3

PREDICTED: Mus musculus Bruton agammaglobulinemia tyrosine kinase (Btk), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Btk (12229)
Length:
2673
CDS:
292..2271

Additional Resources:

NCBI RefSeq record:
XM_006528483.3
NBCI Gene record:
Btk (12229)

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 BRDN0001146090 GATGGTAGTTAATGAGCTCA pXPR_003 GGG 1070 54% 13 0.5202 Btk BTK 77073
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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 Mouse XM_006528483.3, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000361078 TGCGAAAGGGCGAGGAGTATT pLKO_005 995 CDS 100% 13.200 18.480 N Btk n/a
2 TRCN0000023693 GCCGTATGAGAGATTTACTAA pLKO.1 2079 CDS 100% 5.625 7.875 N Btk n/a
3 TRCN0000023690 CCAAGTAACTATATCACTGAA pLKO.1 1084 CDS 100% 4.950 6.930 N Btk n/a
4 TRCN0000361015 GTACCCATTCCAGGTTGTATA pLKO_005 588 CDS 100% 0.000 0.000 N Btk n/a
5 TRCN0000009937 GTATAGCAAGTTCAGCAGCAA pLKO.1 2001 CDS 100% 2.640 2.112 N BTK n/a
6 TRCN0000055425 GTATAGCAAGTTCAGCAGCAA pLKO.1 2001 CDS 100% 2.640 2.112 N BTK n/a
7 TRCN0000361077 TGGCATCAGAGAGGGTATATA pLKO_005 2153 CDS 100% 15.000 10.500 N Btk n/a
8 TRCN0000231462 CACCATCCCTGAGCTCATTAA pLKO_005 1350 CDS 100% 13.200 9.240 N BTK n/a
9 TRCN0000361076 TACATCCCAAGTAACTATATC pLKO_005 1078 CDS 100% 13.200 9.240 N Btk n/a
10 TRCN0000023692 CGCCTGTTTCTCTTGACTGTA pLKO.1 373 CDS 100% 4.950 3.465 N Btk n/a
11 TRCN0000023689 CCTTTATGATTACATGCCAAT pLKO.1 954 CDS 100% 4.050 2.835 N Btk n/a
12 TRCN0000023691 CGAAACTGTTTGGTAAACGAT pLKO.1 1864 CDS 100% 3.000 2.100 N Btk n/a
13 TRCN0000009935 AGGAGGTTTCATTGTCAGAGA pLKO.1 1194 CDS 100% 2.640 1.848 N BTK 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_006528483.3, 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_00180 pDONR223 100% 91.5% 98.3% None (many diffs) n/a
2 ccsbBroad304_00180 pLX_304 26.5% 91.5% 98.3% V5 (many diffs) n/a
3 TRCN0000491272 TTCACAGGCGGTCTGCGCCCGGTG pLX_317 14.1% 91.5% 98.3% V5 (many diffs) n/a
4 TRCN0000472784 GCCCACGCTACAATGCATCCTTGA pLX_317 21.6% 91.5% 98.3% V5 (many diffs) n/a
5 ccsbBroadEn_14554 pDONR223 0% 91.4% 98.3% None (many diffs) n/a
6 ccsbBroad304_14554 pLX_304 0% 91.4% 98.3% V5 (many diffs) n/a
7 TRCN0000488022 GTCCCAGGCGTGAGGACTCCACGT pLX_317 14.3% 91.3% 98.1% V5 (not translated due to prior stop codon) (many diffs) n/a
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