Transcript: Human XM_005248542.3

PREDICTED: Homo sapiens phosphoinositide-3-kinase regulatory subunit 1 (PIK3R1), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
PIK3R1 (5295)
Length:
6998
CDS:
604..2778

Additional Resources:

NCBI RefSeq record:
XM_005248542.3
NBCI Gene record:
PIK3R1 (5295)

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 BRDN0001145056 GTGATTATACTCTTACACTA pXPR_003 AGG 1113 51% 9 0.8497 PIK3R1 PIK3R1 77091
2 BRDN0001148578 CCTACTACTGTAGCCAACAA pXPR_003 CGG 956 44% 8 0.2445 PIK3R1 PIK3R1 77092
3 BRDN0001146657 TTTCCTAGATACACCCTCCG pXPR_003 TGG 511 23% 5 -0.2061 PIK3R1 PIK3R1 77090
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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_005248542.3, 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 TRCN0000039903 GCGCTATGCAATTCTTAATTT pLKO.1 3579 3UTR 100% 15.000 21.000 N PIK3R1 n/a
2 TRCN0000416842 AGTGGTGGACGGCGAAGTAAA pLKO_005 2586 CDS 100% 13.200 18.480 N PIK3R1 n/a
3 TRCN0000039907 CCGTTTACAGTGAAATGATTT pLKO.1 1205 CDS 100% 13.200 18.480 N PIK3R1 n/a
4 TRCN0000413602 TTCATCGAGATGGGAAATATG pLKO_005 1754 CDS 100% 13.200 18.480 N PIK3R1 n/a
5 TRCN0000033288 GCGGTACAGCAAAGAATACAT pLKO.1 2109 CDS 100% 5.625 7.875 N PIK3R1 n/a
6 TRCN0000200002 CCGAGCCCTATAACTTGTACA pLKO.1 2648 CDS 100% 4.950 6.930 N PIK3R1 n/a
7 TRCN0000199643 GCCCTCAAACTTGACTCTACT pLKO.1 5015 3UTR 100% 4.950 6.930 N PIK3R1 n/a
8 TRCN0000039563 TACTGTAGCCAACAACGGTAT pLKO.1 1548 CDS 100% 4.050 5.670 N PIK3R1 n/a
9 TRCN0000199461 GCAGAGGCACTCCTGATATAT pLKO.1 5577 3UTR 100% 15.000 12.000 N PIK3R1 n/a
10 TRCN0000432098 GGCAGCTGAGTATCGAGAAAT pLKO_005 2259 CDS 100% 13.200 10.560 N PIK3R1 n/a
11 TRCN0000196285 GCATGGTGATTATACTCTTAC pLKO.1 1695 CDS 100% 10.800 8.640 N PIK3R1 n/a
12 TRCN0000417698 ACATCGCACTGTGGATTATTT pLKO_005 3257 3UTR 100% 15.000 10.500 N PIK3R1 n/a
13 TRCN0000413458 AGTCGAGAATATGATAGATTA pLKO_005 1981 CDS 100% 13.200 9.240 N PIK3R1 n/a
14 TRCN0000430557 TAACCATGGTGCTTGTTAATG pLKO_005 3103 3UTR 100% 13.200 9.240 N PIK3R1 n/a
15 TRCN0000430938 TACTTTATCCAGTATCCAAAT pLKO_005 1874 CDS 100% 10.800 7.560 N PIK3R1 n/a
16 TRCN0000039904 CGAGGGAAGAAGTGAATGAAA pLKO.1 1619 CDS 100% 5.625 3.938 N PIK3R1 n/a
17 TRCN0000039906 CGGTACAGCAAAGAATACATA pLKO.1 2110 CDS 100% 5.625 3.938 N PIK3R1 n/a
18 TRCN0000033285 CCCATCATGATGAGAAGACAT pLKO.1 2453 CDS 100% 4.950 3.465 N PIK3R1 n/a
19 TRCN0000039905 CCTGAAGAAATTGGCTGGTTA pLKO.1 751 CDS 100% 4.950 3.465 N PIK3R1 n/a
20 TRCN0000033287 CCTCAATGTCACACTAGCCTA pLKO.1 2730 CDS 100% 2.640 1.848 N PIK3R1 n/a
21 TRCN0000033284 CCTTCAGTTCTGTGGTTGAAT pLKO.1 1793 CDS 100% 5.625 3.375 N PIK3R1 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_005248542.3, 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_06728 pDONR223 100% 60.7% 56.7% None (many diffs) n/a
2 ccsbBroad304_06728 pLX_304 47% 60.7% 56.7% V5 (many diffs) n/a
3 TRCN0000466732 GGCTCTGGTGCGGACAGCAGAAGC pLX_317 34.3% 60.7% 56.7% V5 (many diffs) n/a
4 ccsbBroadEn_14763 pDONR223 0% 60.7% 56.7% None (many diffs) n/a
5 ccsbBroad304_14763 pLX_304 49.6% 60.7% 56.7% V5 (many diffs) n/a
6 TRCN0000470397 TTCACCGGAGCCTGAGATAGGCTA pLX_317 32.4% 60.7% 56.7% V5 (many diffs) n/a
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