Transcript: Mouse NM_001174107.1

Mus musculus mitogen-activated protein kinase kinase kinase 9 (Map3k9), transcript variant 1, mRNA.

Source:
NCBI, updated 2017-05-27
Taxon:
Mus musculus (mouse)
Gene:
Map3k9 (338372)
Length:
10619
CDS:
297..3530

Additional Resources:

NCBI RefSeq record:
NM_001174107.1
NBCI Gene record:
Map3k9 (338372)

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 NM_001174107.1, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000022556 TGGGAAAGTTTATCGTGCTTT pLKO.1 740 CDS 100% 4.950 6.930 N Map3k9 n/a
2 TRCN0000362389 CTGGACCAGCTAACGACTATA pLKO_005 1473 CDS 100% 13.200 10.560 N Map3k9 n/a
3 TRCN0000022555 GCGAGAGCTCAATATCATCAT pLKO.1 1718 CDS 100% 4.950 3.960 N Map3k9 n/a
4 TRCN0000022557 GAACAGAGTATTGTCTGGGAA pLKO.1 959 CDS 100% 2.640 2.112 N Map3k9 n/a
5 TRCN0000362306 TCGCCAGAGGGATGAACTATC pLKO_005 1021 CDS 100% 10.800 7.560 N Map3k9 n/a
6 TRCN0000022554 CCTGAGTAACAAGATTCTGAA pLKO.1 1127 CDS 100% 4.950 3.465 N Map3k9 n/a
7 TRCN0000022558 CCCATCTTTCACGAGTATCCT pLKO.1 1454 CDS 100% 3.000 2.100 N Map3k9 n/a
8 TRCN0000362465 ACCTTAAGTCCAGCAACATAT pLKO_005 1078 CDS 100% 13.200 7.920 N Map3k9 n/a
9 TRCN0000362307 ACGGTGTGGCCATGAACAAAC pLKO_005 1351 CDS 100% 10.800 6.480 N Map3k9 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_001174107.1, 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_10970 pDONR223 100% 87.6% 92.6% None (many diffs) n/a
2 ccsbBroad304_10970 pLX_304 0% 87.6% 92.6% V5 (many diffs) n/a
3 TRCN0000466870 TTCTAAGGTTTTCCACCGATTGAC pLX_317 10.3% 87.6% 92.6% V5 (many diffs) n/a
4 TRCN0000491286 CGCCGTCACCATTGCTGTGGGGGC pLX_317 11.5% 84.2% 92.5% V5 (not translated due to prior stop codon) (many diffs) n/a
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