Transcript: Mouse XM_006525749.3

PREDICTED: Mus musculus transcription factor 4 (Tcf4), transcript variant X5, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Tcf4 (21413)
Length:
3398
CDS:
227..2236

Additional Resources:

NCBI RefSeq record:
XM_006525749.3
NBCI Gene record:
Tcf4 (21413)

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_006525749.3, 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 TRCN0000360448 GTTTCAGCATTCCCAATTATC pLKO_005 2389 3UTR 100% 13.200 18.480 N Tcf4 n/a
2 TRCN0000360446 TCGTAGTGGCACAAACCATTA pLKO_005 1075 CDS 100% 10.800 15.120 N Tcf4 n/a
3 TRCN0000012097 CCGAGATATCAACGAGGCTTT pLKO.1 1963 CDS 100% 4.050 5.670 N Tcf4 n/a
4 TRCN0000012095 GCCTCGTCATCTCCCAATTAT pLKO.1 1325 CDS 100% 15.000 12.000 N Tcf4 n/a
5 TRCN0000360516 CCAACGGAACAGACAGTATAA pLKO_005 1122 CDS 100% 13.200 10.560 N Tcf4 n/a
6 TRCN0000012093 CGTCAGCTAGTGTTTCTAATT pLKO.1 2730 3UTR 100% 13.200 10.560 N Tcf4 n/a
7 TRCN0000235556 TAGGTCAAGATCTAGCAATAA pLKO_005 1855 CDS 100% 13.200 10.560 N Tcf4 n/a
8 TRCN0000235555 GAACGGAGGATGGCCAATAAT pLKO_005 1922 CDS 100% 15.000 10.500 N Tcf4 n/a
9 TRCN0000235553 CCTCGTCATCTCCCAATTATG pLKO_005 1326 CDS 100% 13.200 9.240 N Tcf4 n/a
10 TRCN0000235552 CTGGTAGCTCTGAGATCAAAT pLKO_005 1743 CDS 100% 13.200 9.240 N Tcf4 n/a
11 TRCN0000360515 GGAGCAGCAAGTTCGAGAAAG pLKO_005 2083 CDS 100% 10.800 7.560 N Tcf4 n/a
12 TRCN0000012096 CCCAGTACTATCAGTATTCAA pLKO.1 660 CDS 100% 5.625 3.938 N Tcf4 n/a
13 TRCN0000012094 GCTGAGTGATTTACTGGATTT pLKO.1 271 CDS 100% 10.800 6.480 N Tcf4 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_006525749.3, 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_07036 pDONR223 100% 92.3% 97.9% None (many diffs) n/a
2 ccsbBroad304_07036 pLX_304 26.8% 92.3% 97.9% V5 (many diffs) n/a
3 TRCN0000491625 GACTCGGAGTCTTCTAGGCAACCT pLX_317 17.5% 92.3% 97.9% V5 (many diffs) n/a
4 TRCN0000488472 GACCCCTACTCCGCTAGGAGTACC pLX_317 14.8% 91.8% 97.3% V5 (not translated due to prior stop codon) (many diffs) n/a
5 ccsbBroadEn_15607 pDONR223 0% 91.7% 97.3% None (many diffs) n/a
6 ccsbBroad304_15607 pLX_304 0% 91.7% 97.3% V5 (many diffs) n/a
7 TRCN0000479737 GCCATGAGCTAGGTAGAGGATTAG pLX_317 21.2% 91.7% 97.1% V5 (many diffs) n/a
8 ccsbBroadEn_11176 pDONR223 100% 50.8% 53.2% None (many diffs) n/a
9 ccsbBroad304_11176 pLX_304 0% 50.8% 53.2% V5 (many diffs) n/a
10 TRCN0000469284 ACGCAAGGCACAAAAGCACTCACT pLX_317 41.6% 50.8% 53.2% V5 (many diffs) n/a
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