Transcript: Mouse NM_007713.4

Mus musculus CDC-like kinase 3 (Clk3), mRNA.

Source:
NCBI, updated 2017-05-14
Taxon:
Mus musculus (mouse)
Gene:
Clk3 (102414)
Length:
2494
CDS:
344..2260

Additional Resources:

NCBI RefSeq record:
NM_007713.4
NBCI Gene record:
Clk3 (102414)

shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Mouse NM_007713.4, 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 TRCN0000378389 TCCGTAATGTGGGCAAGTATC pLKO_005 1350 CDS 100% 10.800 15.120 N Clk3 n/a
2 TRCN0000231377 CAGCACACGAAGAGTTGGAGA pLKO_005 2272 3UTR 100% 2.640 3.696 N Clk3 n/a
3 TRCN0000023189 GCCCTGAAGATCATCCGTAAT pLKO.1 1337 CDS 100% 10.800 8.640 N Clk3 n/a
4 TRCN0000231374 GCCCTGAAGATCATCCGTAAT pLKO_005 1337 CDS 100% 10.800 8.640 N Clk3 n/a
5 TRCN0000023192 CCTTAGATTTCTACACGAGAA pLKO.1 1597 CDS 100% 4.050 3.240 N Clk3 n/a
6 TRCN0000023193 CGGGAGCATGAAGGTCGACTA pLKO.1 869 CDS 100% 1.350 1.080 N Clk3 n/a
7 TRCN0000361895 AGCTGCTCGTCTAGAAATTAA pLKO_005 1375 CDS 100% 15.000 10.500 N Clk3 n/a
8 TRCN0000000746 CCGTACCAGGAAGCAGAAATA pLKO.1 1984 CDS 100% 13.200 9.240 N CLK3 n/a
9 TRCN0000368819 CTCTGTCATGCCCTTAGATTT pLKO_005 1586 CDS 100% 13.200 9.240 N Clk3 n/a
10 TRCN0000231375 GTTCAACTTCCATGGTCATAT pLKO_005 1462 CDS 100% 13.200 9.240 N Clk3 n/a
11 TRCN0000378182 AGTTTGAAACCCTCTACAATG pLKO_005 1671 CDS 100% 10.800 7.560 N CLK3 n/a
12 TRCN0000231373 CCAGAAGCCATGATCGTATAC pLKO_005 933 CDS 100% 10.800 7.560 N Clk3 n/a
13 TRCN0000231376 TTGAGTACTACCGTGGCTTTA pLKO_005 1881 CDS 100% 10.800 7.560 N Clk3 n/a
14 TRCN0000023191 CGAGGAGAAGTCAGTGAAGAA pLKO.1 1705 CDS 100% 4.950 3.465 N Clk3 n/a
15 TRCN0000023190 GCCACGTTTGACCATGAACAT pLKO.1 1757 CDS 100% 4.950 3.465 N Clk3 n/a
16 TRCN0000196581 GCAGAAATATTTCTACAAAGG pLKO.1 1996 CDS 100% 4.050 2.835 N CLK3 n/a
17 TRCN0000196926 GCATTCTCTTTGAGTACTACC pLKO.1 1872 CDS 100% 4.050 2.835 N CLK3 n/a
18 TRCN0000378439 GAAGAGTTGGAGAGCTGGACT pLKO_005 2280 3UTR 100% 2.640 1.848 N Clk3 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_007713.4, 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_00328 pDONR223 100% 71.2% 75.8% None (many diffs) n/a
2 ccsbBroad304_00328 pLX_304 0% 71.2% 75.8% V5 (many diffs) n/a
3 TRCN0000478370 CCATAGTTGTAAGGTGAAATATGC pLX_317 19.3% 71.2% 75.8% V5 (many diffs) n/a
4 ccsbBroadEn_14591 pDONR223 0% 71.2% 75.8% None (many diffs) n/a
5 ccsbBroad304_14591 pLX_304 0% 71.2% 75.8% V5 (many diffs) n/a
6 TRCN0000475168 TCAGACCTTGCAGATGTCTGTTTT pLX_317 30.3% 71.2% 75.8% V5 (many diffs) n/a
7 TRCN0000492252 AGGTTTACCAATGTTAACAAGTCT pLX_317 24.4% 71.2% 75.8% V5 (not translated due to prior stop codon) (many diffs) n/a
8 TRCN0000489468 ATGTCCTGTAGTCCGTTCGCAGTC pLX_317 28.1% 71.2% 75.8% V5 (not translated due to prior stop codon) (many diffs) n/a
9 TRCN0000489722 CAGTACCAGCGGTACACCAATTTG pLX_317 21% 71.1% 75.7% V5 (many diffs) n/a
10 TRCN0000488364 AAGTTTTACCAGCTTAGATAGGAT pLX_317 21% 71.1% 75.7% V5 (many diffs) n/a
11 ccsbBroadEn_06011 pDONR223 100% 71.1% 75.8% None (many diffs) n/a
12 ccsbBroad304_06011 pLX_304 0% 71.1% 75.8% V5 (many diffs) n/a
13 TRCN0000468038 AAATAGTAAGAAGTATGCTATCGT pLX_317 30.4% 71.1% 75.8% V5 (many diffs) n/a
14 TRCN0000491330 GCCGAGCGGATCGATCCCAGCGGT pLX_317 16.6% 70.9% 75.8% V5 (not translated due to prior stop codon) (many diffs) n/a
15 ccsbBroadEn_15385 pDONR223 0% 67.6% 72.2% None (many diffs) n/a
16 ccsbBroad304_15385 pLX_304 0% 67.6% 72.2% V5 (many diffs) n/a
17 TRCN0000471198 TTAAGGCGGCTCCGCGGCTTCGAA pLX_317 17.3% 67.6% 72.2% V5 (many diffs) n/a
18 TRCN0000491339 ATTCTCCCAACGTCGAAGGAAGAG pLX_317 28.2% 67.6% 72.2% V5 (not translated due to prior stop codon) (many diffs) n/a
19 TRCN0000489336 TTGTAGAATTCCGGTAAAACAACC pLX_317 25.5% 67.6% 72.1% V5 (many diffs) n/a
20 ccsbBroadEn_15332 pDONR223 100% 8% 8.4% None (many diffs) n/a
21 ccsbBroad304_15332 pLX_304 0% 8% 8.4% V5 (many diffs) n/a
22 TRCN0000480168 GCTTTATGGCAATTGTACTATGTC pLX_317 100% 8% 8.4% V5 (many diffs) n/a
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