Transcript: Mouse XM_006539614.3

PREDICTED: Mus musculus neuronal PAS domain protein 1 (Npas1), transcript variant X2, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Npas1 (18142)
Length:
2126
CDS:
228..2009

Additional Resources:

NCBI RefSeq record:
XM_006539614.3
NBCI Gene record:
Npas1 (18142)

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 XM_006539614.3, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000095178 GCAATGCTGAAGGTAGTCAAA pLKO.1 1444 CDS 100% 4.950 6.930 N Npas1 n/a
2 TRCN0000095177 GTGTTCGCTTTGAACCAGGAA pLKO.1 675 CDS 100% 2.640 3.696 N Npas1 n/a
3 TRCN0000095176 CGTGCGTCTTAGCGTCACCTA pLKO.1 488 CDS 100% 0.880 1.232 N Npas1 n/a
4 TRCN0000095175 GAGCAGAGTTAGCGACCATAT pLKO.1 1184 CDS 100% 10.800 8.640 N Npas1 n/a
5 TRCN0000095174 GCACGGACACATGATTGTCTT pLKO.1 1127 CDS 100% 4.950 3.465 N Npas1 n/a
6 TRCN0000015291 CCTTCTTTGTCCGCATGAAAT pLKO.1 964 CDS 100% 13.200 9.240 N NPAS1 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_006539614.3, 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_06652 pDONR223 100% 83.5% 86.5% None (many diffs) n/a
2 ccsbBroad304_06652 pLX_304 0% 83.5% 86.5% V5 (many diffs) n/a
3 TRCN0000475664 ATCTCGCGCCACCCTAAGAATCAA pLX_317 8.4% 83.5% 86.5% V5 (many diffs) n/a
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