Transcript: Mouse NM_011653.2

Mus musculus tubulin, alpha 1A (Tuba1a), mRNA.

Source:
NCBI, updated 2017-06-14
Taxon:
Mus musculus (mouse)
Gene:
Tuba1a (22142)
Length:
1591
CDS:
49..1404

Additional Resources:

NCBI RefSeq record:
NM_011653.2
NBCI Gene record:
Tuba1a (22142)

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 Mouse NM_011653.2, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000123590 CCCAACCTACACTAACCTAAA pLKO.1 711 CDS 100% 10.800 7.560 N Tuba1a n/a
2 TRCN0000123589 CACAGGGATGTTTATTGTGTT pLKO.1 1430 3UTR 100% 4.950 3.465 N Tuba1a n/a
3 TRCN0000248507 TGACCCTCGCCATGGTAAATA pLKO_005 963 CDS 100% 15.000 7.500 Y Tuba1c n/a
4 TRCN0000198755 CAAGGAGGATGCTGCCAATAA pLKO.1 333 CDS 100% 13.200 6.600 Y Tuba1b n/a
5 TRCN0000248504 CTGTGGTTGAGCCCTACAATT pLKO_005 587 CDS 100% 13.200 6.600 Y Tuba1c n/a
6 TRCN0000123591 GCTGCCCTAGAGAAGGATTAT pLKO.1 1324 CDS 100% 13.200 6.600 Y Tuba1a n/a
7 TRCN0000248506 CCATTGGCAAGGAGATCATTG pLKO_005 374 CDS 100% 10.800 5.400 Y Tuba1c n/a
8 TRCN0000123593 GCAAGGAGGATGCTGCCAATA pLKO.1 332 CDS 100% 10.800 5.400 Y Tuba1a n/a
9 TRCN0000248508 TAGACAATGAGGCCATCTATG pLKO_005 659 CDS 100% 10.800 5.400 Y Tuba1c n/a
10 TRCN0000197643 CACAAGTTTGATCTGATGTAT pLKO.1 1225 CDS 100% 5.625 2.813 Y Tuba1b n/a
11 TRCN0000090633 CGCCTAGATCACAAGTTTGAT pLKO.1 1216 CDS 100% 5.625 2.813 Y LOC232044 n/a
12 TRCN0000182259 GCTCGCCTAGATCACAAGTTT pLKO.1 1213 CDS 100% 5.625 2.813 Y Tuba1c n/a
13 TRCN0000123592 CCTGTCATCTCTGCTGAGAAA pLKO.1 868 CDS 100% 4.950 2.475 Y Tuba1a n/a
14 TRCN0000029143 GCACTCTGATTGTGCCTTCAT pLKO.1 636 CDS 100% 4.950 2.475 Y TUBA1C n/a
15 TRCN0000181877 GCAGCTTTCTGTAGCAGAGAT pLKO.1 900 CDS 100% 4.950 2.475 Y Tuba1b n/a
16 TRCN0000178352 GTGGTTCCCAAAGATGTCAAT pLKO.1 1015 CDS 100% 4.950 2.475 Y Tuba1c n/a
17 TRCN0000091142 TGAATGTTGATCTGACAGAAT pLKO.1 791 CDS 100% 4.950 2.475 Y LOC212252 n/a
18 TRCN0000091397 TGACTCCTTCAACACCTTCTT pLKO.1 186 CDS 100% 4.950 2.475 Y LOC434390 n/a
19 TRCN0000091395 CTACACCATTGGCAAGGAGAT pLKO.1 369 CDS 100% 4.050 2.025 Y LOC434390 n/a
20 TRCN0000181495 GCTCTCTGTGGATTACGGAAA pLKO.1 516 CDS 100% 4.050 2.025 Y Tuba1b n/a
21 TRCN0000152522 GAGAAGGATTATGAGGAGGTT pLKO.1 1333 CDS 100% 2.640 1.320 Y TUBA1B n/a
22 TRCN0000181722 GATGCCAAGTGACAAGACCAT pLKO.1 153 CDS 100% 2.640 1.320 Y Tuba1b n/a
23 TRCN0000090162 GTTTGATCTGATGTATGCCAA pLKO.1 1230 CDS 100% 2.640 1.320 Y LOC436224 n/a
24 TRCN0000091396 GCTGGTGTCCAGATCGGCAAT pLKO.1 82 CDS 100% 1.350 0.675 Y LOC434390 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 NM_011653.2, 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_01831 pDONR223 100% 93.6% 100% None (many diffs) n/a
2 ccsbBroad304_01831 pLX_304 0% 93.6% 100% V5 (many diffs) n/a
3 TRCN0000466264 GACTTCAAATAAATAGCTTCACTC pLX_317 23.8% 93.6% 100% V5 (many diffs) n/a
4 ccsbBroadEn_02413 pDONR223 100% 93.5% 99.5% None (many diffs) n/a
5 ccsbBroad304_02413 pLX_304 0% 93.5% 99.5% V5 (many diffs) n/a
6 TRCN0000466437 GGCACCAGGAAACTAGGGGTGTGT pLX_317 31.7% 93.5% 99.5% V5 (many diffs) n/a
7 ccsbBroadEn_15707 pDONR223 0% 93.4% 99.5% None (many diffs) n/a
8 ccsbBroad304_15707 pLX_304 0% 93.4% 99.5% V5 (many diffs) n/a
9 TRCN0000467476 CACCGTCGAGGCCGCTGTATAAGA pLX_317 31.7% 93.4% 99.5% V5 (many diffs) n/a
10 ccsbBroadEn_15706 pDONR223 0% 93.4% 99.5% None (many diffs) n/a
11 ccsbBroad304_15706 pLX_304 0% 93.4% 99.5% V5 (many diffs) n/a
12 TRCN0000472335 TTCTGAAATAAGACACGCCGGGCA pLX_317 37.9% 93.4% 99.5% V5 (many diffs) n/a
13 ccsbBroadEn_09222 pDONR223 100% 91.8% 98% None (many diffs) n/a
14 ccsbBroad304_09222 pLX_304 0% 91.8% 98% V5 (many diffs) n/a
15 ccsbBroadEn_16042 pDONR223 0% 91.7% 98% None (many diffs) n/a
16 ccsbBroad304_16042 pLX_304 0% 91.7% 98% V5 (many diffs) n/a
17 ccsbBroadEn_16043 pDONR223 0% 91.6% 98% None (many diffs) n/a
18 ccsbBroad304_16043 pLX_304 0% 91.6% 98% V5 (many diffs) n/a
19 TRCN0000465274 AATTCTCGGGCCTTAAGCACTAAC pLX_317 23.4% 91.6% 98% V5 (many diffs) n/a
20 ccsbBroadEn_07108 pDONR223 100% 85.6% 95.7% None (many diffs) n/a
21 ccsbBroad304_07108 pLX_304 0% 85.6% 95.7% V5 (many diffs) n/a
22 TRCN0000467865 AGTTCGTGAAACATACGCCGGCAG pLX_317 34.6% 85.6% 95.7% V5 (many diffs) n/a
23 ccsbBroadEn_09386 pDONR223 100% 85.4% 97.3% None (many diffs) n/a
24 ccsbBroad304_09386 pLX_304 0% 85.4% 97.3% V5 (many diffs) n/a
25 TRCN0000465924 GTCATGGAGAAAGTCGGTGACCGG pLX_317 28.5% 85.4% 97.3% V5 (many diffs) n/a
26 ccsbBroadEn_09375 pDONR223 100% 85% 96.4% None (many diffs) n/a
27 ccsbBroad304_09375 pLX_304 0% 85% 96.4% V5 (many diffs) n/a
28 TRCN0000469142 GAGGCCACAGGCCATAAACTAATT pLX_317 29% 85% 96.4% V5 (many diffs) n/a
29 ccsbBroadEn_15708 pDONR223 0% 69.9% 73.8% None (many diffs) n/a
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