Transcript: Human NM_007298.3

Homo sapiens BRCA1 DNA repair associated (BRCA1), transcript variant 4, mRNA.

Source:
NCBI, updated 2019-07-16
Taxon:
Homo sapiens (human)
Gene:
BRCA1 (672)
Length:
3699
CDS:
20..2299

Additional Resources:

NCBI RefSeq record:
NM_007298.3
NBCI Gene record:
BRCA1 (672)

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 NM_007298.3, 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 TRCN0000244988 GCTATGCAAGGGTCCCTTAAA pLKO_005 2452 3UTR 100% 13.200 18.480 N BRCA1 n/a
2 TRCN0000221590 CCCTTCTAAATGCCCATCATT pLKO.1 1198 CDS 100% 5.625 7.875 N BRCA1 n/a
3 TRCN0000221591 GCCTACAAGAAAGTACGAGAT pLKO.1 234 CDS 100% 4.050 5.670 N BRCA1 n/a
4 TRCN0000009823 TATAAGACCTCTGGCATGAAT pLKO.1 3359 3UTR 100% 5.625 4.500 N BRCA1 n/a
5 TRCN0000244987 ACTGATACTGCTGGGTATAAT pLKO_005 1565 CDS 100% 15.000 10.500 N BRCA1 n/a
6 TRCN0000244984 GAGTATGCAAACAGCTATAAT pLKO_005 317 CDS 100% 15.000 10.500 N BRCA1 n/a
7 TRCN0000221587 CCCTAAGTTTACTTCTCTAAA pLKO.1 2683 3UTR 100% 13.200 9.240 N BRCA1 n/a
8 TRCN0000009824 TATAGCTGTTGGAAGGACTAG pLKO.1 3548 3UTR 100% 4.050 2.835 N BRCA1 n/a
9 TRCN0000222574 CGCCTGTAATCCCAGCACTTT pLKO.1 2893 3UTR 100% 4.950 2.475 Y ERAP2 n/a
10 TRCN0000078113 GCCTGTAATCCCAGCACTTTA pLKO.1 2894 3UTR 100% 13.200 6.600 Y LIAS 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_007298.3, 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_00173 pDONR223 100% 92% 87.6% None 2021_2094del;2172_2277del n/a
2 ccsbBroad304_00173 pLX_304 30.7% 92% 87.6% V5 2021_2094del;2172_2277del n/a
3 TRCN0000472103 TGTGCGGCCGCCACCACGTGCGCA pLX_317 23.8% 92% 87.6% V5 2021_2094del;2172_2277del n/a
4 ccsbBroadEn_10699 pDONR223 100% 47.9% 39.5% None (many diffs) n/a
5 ccsbBroad304_10699 pLX_304 0% 47.9% 39.5% V5 (many diffs) n/a
6 TRCN0000470790 CGAGAAGCCCGACGCTAGTATCCC pLX_317 10.9% 47.9% 39.5% V5 (many diffs) n/a
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