Transcript: Human NM_001130028.1

Homo sapiens CDC like kinase 3 (CLK3), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-08-21
Taxon:
Homo sapiens (human)
Gene:
CLK3 (1198)
Length:
2713
CDS:
462..2378

Additional Resources:

NCBI RefSeq record:
NM_001130028.1
NBCI Gene record:
CLK3 (1198)

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.

Clone ID Target Seq Vector PAM Seq Cut Position Cut % of CDS Length Exon On Target Score[?] Other Matching Genes Orig. Target Gene[?] Notes Addgene[?]
1 BRDN0001146417 AGTCAGACATCAAGACACAC pXPR_003 AGG 656 45% 7 1.0569 CLK3 CLK3 77286
2 BRDN0001147044 ACTGCGATACCCGTCCCGAA pXPR_003 GGG 115 8% 2 0.2758 CLK3 CLK3 77284
3 BRDN0001146636 GAAGAACACCAGCATCCGAG pXPR_003 TGG 949 64% 9 0.246 CLK3 CLK3 77285
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shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human NM_001130028.1, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000000748 ACTACTATGGACCTTCACGTT pLKO.1 1150 CDS 100% 2.640 3.696 N CLK3 n/a
2 TRCN0000364127 ATGAGGAGGATGTTAGAATTT pLKO_005 2250 CDS 100% 13.200 9.240 N CLK3 n/a
3 TRCN0000000746 CCGTACCAGGAAGCAGAAATA pLKO.1 2102 CDS 100% 13.200 9.240 N CLK3 n/a
4 TRCN0000363092 CTCTGCCACGCCCTTAGATTT pLKO_005 1704 CDS 100% 13.200 9.240 N CLK3 n/a
5 TRCN0000195478 CCTTTGGAGAGGACTACTATG pLKO.1 1138 CDS 100% 10.800 7.560 N CLK3 n/a
6 TRCN0000363093 GCATTGGCTGCATTCTCTTTG pLKO_005 1981 CDS 100% 10.800 7.560 N CLK3 n/a
7 TRCN0000000749 CATTGGCTGCATTCTCTTTGA pLKO.1 1982 CDS 100% 4.950 3.465 N CLK3 n/a
8 TRCN0000195010 CCTTAGATTTCTGCATGAGAA pLKO.1 1715 CDS 100% 4.950 3.465 N CLK3 n/a
9 TRCN0000196581 GCAGAAATATTTCTACAAAGG pLKO.1 2114 CDS 100% 4.050 2.835 N CLK3 n/a
10 TRCN0000196926 GCATTCTCTTTGAGTACTACC pLKO.1 1990 CDS 100% 4.050 2.835 N CLK3 n/a
11 TRCN0000000745 GCTAGAAATCAACGTGCTCAA pLKO.1 1502 CDS 100% 4.050 2.835 N CLK3 n/a
12 TRCN0000000747 CCTGTGTGTCTTGATGTCTGA pLKO.1 1556 CDS 100% 2.640 1.848 N CLK3 n/a
13 TRCN0000199016 CCACGAAGATCTCGGTCCAGA pLKO.1 1035 CDS 100% 0.880 0.616 N CLK3 n/a
14 TRCN0000378182 AGTTTGAAACCCTCTACAATG pLKO_005 1789 CDS 100% 10.800 6.480 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_001130028.1, 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_00328 pDONR223 100% 76.8% 76.8% None 1_444del n/a
2 ccsbBroad304_00328 pLX_304 0% 76.8% 76.8% V5 1_444del n/a
3 TRCN0000478370 CCATAGTTGTAAGGTGAAATATGC pLX_317 19.3% 76.8% 76.8% V5 1_444del n/a
4 ccsbBroadEn_14591 pDONR223 0% 76.8% 76.8% None 1_444del n/a
5 ccsbBroad304_14591 pLX_304 0% 76.8% 76.8% V5 1_444del n/a
6 TRCN0000475168 TCAGACCTTGCAGATGTCTGTTTT pLX_317 30.3% 76.8% 76.8% V5 1_444del n/a
7 TRCN0000492252 AGGTTTACCAATGTTAACAAGTCT pLX_317 24.4% 76.8% 76.8% V5 (not translated due to prior stop codon) 1_444del n/a
8 TRCN0000489468 ATGTCCTGTAGTCCGTTCGCAGTC pLX_317 28.1% 76.8% 76.8% V5 (not translated due to prior stop codon) 1_444del n/a
9 TRCN0000489722 CAGTACCAGCGGTACACCAATTTG pLX_317 21% 76.7% 76.6% V5 1_444del;1914_1915insG n/a
10 TRCN0000488364 AAGTTTTACCAGCTTAGATAGGAT pLX_317 21% 76.7% 76.6% V5 1_444del;1914_1915insG n/a
11 ccsbBroadEn_06011 pDONR223 100% 76.7% 76.8% None 1_444del;1867C>T n/a
12 ccsbBroad304_06011 pLX_304 0% 76.7% 76.8% V5 1_444del;1867C>T n/a
13 TRCN0000468038 AAATAGTAAGAAGTATGCTATCGT pLX_317 30.4% 76.7% 76.8% V5 1_444del;1867C>T n/a
14 TRCN0000491330 GCCGAGCGGATCGATCCCAGCGGT pLX_317 16.6% 76.4% 76.8% V5 (not translated due to prior stop codon) 1_444del;1914_1915insTGAAAGCT n/a
15 ccsbBroadEn_15385 pDONR223 0% 73.1% 73.1% None 1_444del;914_982del n/a
16 ccsbBroad304_15385 pLX_304 0% 73.1% 73.1% V5 1_444del;914_982del n/a
17 TRCN0000471198 TTAAGGCGGCTCCGCGGCTTCGAA pLX_317 17.3% 73.1% 73.1% V5 1_444del;914_982del n/a
18 TRCN0000491339 ATTCTCCCAACGTCGAAGGAAGAG pLX_317 28.2% 73.1% 73.1% V5 (not translated due to prior stop codon) 1_444del;914_982del n/a
19 TRCN0000489336 TTGTAGAATTCCGGTAAAACAACC pLX_317 25.5% 73.1% 73% V5 1_444del;914_982del;1914_1915insG n/a
20 ccsbBroadEn_15332 pDONR223 100% 8.7% 8.6% None 1_1746del;1900C>T n/a
21 ccsbBroad304_15332 pLX_304 0% 8.7% 8.6% V5 1_1746del;1900C>T n/a
22 TRCN0000480168 GCTTTATGGCAATTGTACTATGTC pLX_317 100% 8.7% 8.6% V5 1_1746del;1900C>T n/a
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