Transcript: Mouse XM_006515800.2

PREDICTED: Mus musculus TNF receptor-associated factor 3 (Traf3), transcript variant X3, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Traf3 (22031)
Length:
7154
CDS:
357..2060

Additional Resources:

NCBI RefSeq record:
XM_006515800.2
NBCI Gene record:
Traf3 (22031)

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_006515800.2, 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 TRCN0000453976 ACAAGGTGTTTAAGGATAATT pLKO_005 646 CDS 100% 15.000 21.000 N Traf3 n/a
2 TRCN0000067702 CCGAAACAACGAGTCCAAGAT pLKO.1 1280 CDS 100% 4.950 6.930 N Traf3 n/a
3 TRCN0000452943 ACTTGTCCGAGTGTGTCAATG pLKO_005 1015 CDS 100% 10.800 8.640 N Traf3 n/a
4 TRCN0000067699 GCCTTTCTACACAGGTTATTT pLKO.1 1682 CDS 100% 15.000 10.500 N Traf3 n/a
5 TRCN0000448464 GCAATCTTGTTTCAAATATAG pLKO_005 2517 3UTR 100% 13.200 9.240 N Traf3 n/a
6 TRCN0000441018 ATGCACAGCGTGCCAAGAAAG pLKO_005 614 CDS 100% 10.800 7.560 N Traf3 n/a
7 TRCN0000451430 CAATCTTTATTAAGGTCATAG pLKO_005 2011 CDS 100% 10.800 7.560 N Traf3 n/a
8 TRCN0000067700 CCCATGATCAAACTGCAGAAA pLKO.1 906 CDS 100% 4.950 3.465 N Traf3 n/a
9 TRCN0000067701 GCCCAGTCTTTGTCGCCCAAA pLKO.1 1954 CDS 100% 1.350 0.945 N Traf3 n/a
10 TRCN0000067698 GCATCATCAAAGACAAGGTAT pLKO.1 634 CDS 100% 4.950 3.465 N Traf3 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_006515800.2, 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_07098 pDONR223 100% 88.8% 95.9% None (many diffs) n/a
2 TRCN0000476352 ACAACCACCACATGATTTTCTTCC pLX_317 21.1% 88.8% 95.9% V5 (many diffs) n/a
3 ccsbBroad304_07098 pLX_304 26.5% 72.2% 69.1% V5 (not translated due to prior stop codon) (many diffs) n/a
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