Transcript: Human XM_005260589.3

PREDICTED: Homo sapiens breast carcinoma amplified sequence 1 (BCAS1), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
BCAS1 (8537)
Length:
3349
CDS:
121..1968

Additional Resources:

NCBI RefSeq record:
XM_005260589.3
NBCI Gene record:
BCAS1 (8537)

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 Human XM_005260589.3, 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 TRCN0000231091 ATAAGTGTCAAGACGGATAAT pLKO_005 274 CDS 100% 13.200 10.560 N BCAS1 n/a
2 TRCN0000231092 GTCACCAGTAGAGATTATAAA pLKO_005 1407 CDS 100% 15.000 10.500 N BCAS1 n/a
3 TRCN0000218325 AGTCAGACAAAGCCAACTTTA pLKO_005 1220 CDS 100% 13.200 9.240 N BCAS1 n/a
4 TRCN0000129151 GTGAGTCACCAGTAGAGATTA pLKO.1 1403 CDS 100% 13.200 9.240 N BCAS1 n/a
5 TRCN0000231094 GTTGTATATTGAGGTGTATTA pLKO_005 2110 3UTR 100% 13.200 9.240 N BCAS1 n/a
6 TRCN0000130428 GAGGGAATAGAGGAATGTGTT pLKO.1 2233 3UTR 100% 4.950 3.465 N BCAS1 n/a
7 TRCN0000128179 CAAATTCTTCAAGCTGGACAA pLKO.1 705 CDS 100% 4.050 2.835 N BCAS1 n/a
8 TRCN0000129241 CTTACAAACAGTGGACCTCAA pLKO.1 1449 CDS 100% 4.050 2.835 N BCAS1 n/a
9 TRCN0000130849 GCATCAAGACAAGGTGGATGA pLKO.1 777 CDS 100% 4.050 2.835 N BCAS1 n/a
10 TRCN0000129875 GCTGTTGTATATTGAGGTGTA pLKO.1 2107 3UTR 100% 4.050 2.835 N BCAS1 n/a
11 TRCN0000130206 CAACGGAAAGAATCTTGGGAA pLKO.1 345 CDS 100% 2.640 1.848 N BCAS1 n/a
12 TRCN0000127708 GCAAACCAAGAACCTCTCTGA pLKO.1 1523 CDS 100% 2.640 1.848 N BCAS1 n/a
13 TRCN0000129025 GCTGACCTTAAGTCAGACAAA pLKO.1 1210 CDS 100% 0.495 0.347 N BCAS1 n/a
14 TRCN0000231093 CAGTTGGCAAATCCAAGTAAA pLKO_005 1949 CDS 100% 13.200 7.920 N BCAS1 n/a
15 TRCN0000217561 GATGGCGTTTCTCAGACAAAT pLKO.1 1542 CDS 100% 13.200 7.920 N Bcas1 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_005260589.3, 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_07257 pDONR223 100% 90.5% 90.6% None 858C>T;927_1061del;1275_1276ins42 n/a
2 ccsbBroad304_07257 pLX_304 0% 90.5% 90.6% V5 858C>T;927_1061del;1275_1276ins42 n/a
3 TRCN0000480646 GCATTTGCACTACACCAACGTAGT pLX_317 18.8% 90.5% 90.6% V5 858C>T;927_1061del;1275_1276ins42 n/a
4 ccsbBroadEn_15636 pDONR223 0% 90.4% 90.3% None (many diffs) n/a
5 ccsbBroad304_15636 pLX_304 0% 90.4% 90.3% V5 (many diffs) n/a
6 TRCN0000480636 AGGGAGCTTAGAGGAATGATTCAT pLX_317 20.5% 90.4% 90.3% V5 (many diffs) n/a
7 TRCN0000466026 GTGCGACGCCAGGGCGATAACCTA pLX_317 62.3% 21.8% 4.9% V5 (not translated due to frame shift) (many diffs) n/a
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