Transcript: Human NM_001270399.1

Homo sapiens tubulin alpha 1a (TUBA1A), transcript variant 2, mRNA.

Source:
NCBI, updated 2019-08-05
Taxon:
Homo sapiens (human)
Gene:
TUBA1A (7846)
Length:
2490
CDS:
906..2261

Additional Resources:

NCBI RefSeq record:
NM_001270399.1
NBCI Gene record:
TUBA1A (7846)

shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human NM_001270399.1, 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 TRCN0000323329 ATAGGTTAATAGGTCAAATTG pLKO_005 1588 CDS 100% 13.200 18.480 N TUBA1A n/a
2 TRCN0000113840 CCTGAATAGGTTAATAGGTCA pLKO.1 1583 CDS 100% 2.640 3.696 N TUBA1A n/a
3 TRCN0000113838 CAACCTATACTAACCTGAATA pLKO.1 1570 CDS 100% 13.200 9.240 N TUBA1A n/a
4 TRCN0000323328 ATATTGAGCGTCCAACCTATA pLKO_005 1558 CDS 100% 10.800 7.560 N TUBA1A n/a
5 TRCN0000113836 ACGTCACAAAGGTGCTGCTTT pLKO.1 2269 3UTR 100% 4.950 3.465 N TUBA1A n/a
6 TRCN0000113837 CCAACCTATACTAACCTGAAT pLKO.1 1569 CDS 100% 4.950 3.465 N TUBA1A n/a
7 TRCN0000327826 CCAACCTATACTAACCTGAAT pLKO_005 1569 CDS 100% 4.950 3.465 N TUBA1A n/a
8 TRCN0000323327 TACAGGGAAGCTTATTCTGTT pLKO_005 2290 3UTR 100% 4.950 3.465 N TUBA1A n/a
9 TRCN0000113839 GCAAAGAAGATGCTGCCAATA pLKO.1 1189 CDS 100% 10.800 6.480 N TUBA1A n/a
10 TRCN0000323397 AGCAACTTATCACAGGCAAAG pLKO_005 1174 CDS 100% 6.000 3.600 N TUBA1A n/a
11 TRCN0000248507 TGACCCTCGCCATGGTAAATA pLKO_005 1820 CDS 100% 15.000 7.500 Y Tuba1c n/a
12 TRCN0000029141 GCTGCCCTTGAGAAGGATTAT pLKO.1 2181 CDS 100% 13.200 6.600 Y TUBA1C n/a
13 TRCN0000157025 GCTGCCCTTGAGAAGGATTAT pLKO.1 2181 CDS 100% 13.200 6.600 Y TUBA1B n/a
14 TRCN0000319306 GCTGCCCTTGAGAAGGATTAT pLKO_005 2181 CDS 100% 13.200 6.600 Y TUBA1C n/a
15 TRCN0000248506 CCATTGGCAAGGAGATCATTG pLKO_005 1231 CDS 100% 10.800 5.400 Y Tuba1c n/a
16 TRCN0000248508 TAGACAATGAGGCCATCTATG pLKO_005 1516 CDS 100% 10.800 5.400 Y Tuba1c n/a
17 TRCN0000153763 CCACAAGTTTGACCTGATGTA pLKO.1 2081 CDS 100% 4.950 2.475 Y TUBA1B n/a
18 TRCN0000319311 CCACAAGTTTGACCTGATGTA pLKO_005 2081 CDS 100% 4.950 2.475 Y TUBA1B n/a
19 TRCN0000029142 CCCACAGTCATTGATGAAGTT pLKO.1 1119 CDS 100% 4.950 2.475 Y TUBA1C n/a
20 TRCN0000153865 CCCACAGTCATTGATGAAGTT pLKO.1 1119 CDS 100% 4.950 2.475 Y TUBA1B n/a
21 TRCN0000319375 CCCACAGTCATTGATGAAGTT pLKO_005 1119 CDS 100% 4.950 2.475 Y TUBA1C n/a
22 TRCN0000123592 CCTGTCATCTCTGCTGAGAAA pLKO.1 1725 CDS 100% 4.950 2.475 Y Tuba1a n/a
23 TRCN0000029143 GCACTCTGATTGTGCCTTCAT pLKO.1 1493 CDS 100% 4.950 2.475 Y TUBA1C n/a
24 TRCN0000157518 GCTGAGAAAGCCTACCATGAA pLKO.1 1737 CDS 100% 4.950 2.475 Y TUBA1B n/a
25 TRCN0000319310 GCTGAGAAAGCCTACCATGAA pLKO_005 1737 CDS 100% 4.950 2.475 Y TUBA1B n/a
26 TRCN0000178352 GTGGTTCCCAAAGATGTCAAT pLKO.1 1872 CDS 100% 4.950 2.475 Y Tuba1c n/a
27 TRCN0000153117 GTTGGTGTGGATTCTGTTGAA pLKO.1 2208 CDS 100% 4.950 2.475 Y TUBA1B n/a
28 TRCN0000091395 CTACACCATTGGCAAGGAGAT pLKO.1 1226 CDS 100% 4.050 2.025 Y LOC434390 n/a
29 TRCN0000152522 GAGAAGGATTATGAGGAGGTT pLKO.1 2190 CDS 100% 2.640 1.320 Y TUBA1B n/a
30 TRCN0000181722 GATGCCAAGTGACAAGACCAT pLKO.1 1010 CDS 100% 2.640 1.320 Y Tuba1b 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_001270399.1, 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% 100% 100% None n/a
2 ccsbBroad304_01831 pLX_304 0% 100% 100% V5 n/a
3 TRCN0000466264 GACTTCAAATAAATAGCTTCACTC pLX_317 23.8% 100% 100% V5 n/a
4 ccsbBroadEn_15707 pDONR223 0% 97.3% 99.5% None (many diffs) n/a
5 ccsbBroad304_15707 pLX_304 0% 97.3% 99.5% V5 (many diffs) n/a
6 TRCN0000467476 CACCGTCGAGGCCGCTGTATAAGA pLX_317 31.7% 97.3% 99.5% V5 (many diffs) n/a
7 ccsbBroadEn_15706 pDONR223 0% 97.2% 99.5% None (many diffs) n/a
8 ccsbBroad304_15706 pLX_304 0% 97.2% 99.5% V5 (many diffs) n/a
9 TRCN0000472335 TTCTGAAATAAGACACGCCGGGCA pLX_317 37.9% 97.2% 99.5% V5 (many diffs) n/a
10 ccsbBroadEn_02413 pDONR223 100% 97.2% 99.5% None (many diffs) n/a
11 ccsbBroad304_02413 pLX_304 0% 97.2% 99.5% V5 (many diffs) n/a
12 TRCN0000466437 GGCACCAGGAAACTAGGGGTGTGT pLX_317 31.7% 97.2% 99.5% V5 (many diffs) n/a
13 ccsbBroadEn_09222 pDONR223 100% 96.1% 98% None (many diffs) n/a
14 ccsbBroad304_09222 pLX_304 0% 96.1% 98% V5 (many diffs) n/a
15 ccsbBroadEn_16043 pDONR223 0% 96% 98% None (many diffs) n/a
16 ccsbBroad304_16043 pLX_304 0% 96% 98% V5 (many diffs) n/a
17 TRCN0000465274 AATTCTCGGGCCTTAAGCACTAAC pLX_317 23.4% 96% 98% V5 (many diffs) n/a
18 ccsbBroadEn_16042 pDONR223 0% 95.9% 98% None (many diffs) n/a
19 ccsbBroad304_16042 pLX_304 0% 95.9% 98% V5 (many diffs) n/a
20 ccsbBroadEn_07108 pDONR223 100% 84.5% 95.7% None (many diffs) n/a
21 ccsbBroad304_07108 pLX_304 0% 84.5% 95.7% V5 (many diffs) n/a
22 TRCN0000467865 AGTTCGTGAAACATACGCCGGCAG pLX_317 34.6% 84.5% 95.7% V5 (many diffs) n/a
23 ccsbBroadEn_09386 pDONR223 100% 84.4% 97.3% None (many diffs) n/a
24 ccsbBroad304_09386 pLX_304 0% 84.4% 97.3% V5 (many diffs) n/a
25 TRCN0000465924 GTCATGGAGAAAGTCGGTGACCGG pLX_317 28.5% 84.4% 97.3% V5 (many diffs) n/a
26 ccsbBroadEn_09375 pDONR223 100% 84.1% 96.4% None (many diffs) n/a
27 ccsbBroad304_09375 pLX_304 0% 84.1% 96.4% V5 (many diffs) n/a
28 TRCN0000469142 GAGGCCACAGGCCATAAACTAATT pLX_317 29% 84.1% 96.4% V5 (many diffs) n/a
29 ccsbBroadEn_15708 pDONR223 0% 72.8% 73.8% None (many diffs) n/a
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