Transcript: Human XM_011515556.1

PREDICTED: Homo sapiens calcium/calmodulin dependent protein kinase II beta (CAMK2B), transcript variant X10, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CAMK2B (816)
Length:
2252
CDS:
87..2072

Additional Resources:

NCBI RefSeq record:
XM_011515556.1
NBCI Gene record:
CAMK2B (816)

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 BRDN0001145558 TGCAGAGCTTGACACAGCGT pXPR_003 CGG 89 4% 2 0.5992 CAMK2B CAMK2B 77743
2 BRDN0001148038 GTCCTTCGCAAAGAGGCGTA pXPR_003 TGG 569 29% 8 0.1017 CAMK2B CAMK2B 77744
3 BRDN0001148102 CTCACCTGAGAAATTCCGTG pXPR_003 TGG 934 47% 12 -0.1914 CAMK2B CAMK2B 77742
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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 XM_011515556.1, 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 TRCN0000219642 TACCAGCTCTACGAGGATATT pLKO.1 126 CDS 100% 0.000 0.000 N CAMK2B n/a
2 TRCN0000000466 GACCAGATGTGATTTGTTAAA pLKO.1 2205 3UTR 100% 13.200 10.560 N CAMK2B n/a
3 TRCN0000195670 CCGGAAGCAGGAGATCATTAA pLKO.1 1670 CDS 100% 13.200 9.240 N CAMK2B n/a
4 TRCN0000219643 ATAGAGGATGAAGACGCTAAA pLKO.1 1146 CDS 100% 10.800 7.560 N CAMK2B n/a
5 TRCN0000000468 CTCAAACCACCGTCATCCATA pLKO.1 1078 CDS 100% 4.950 3.465 N CAMK2B n/a
6 TRCN0000000470 ATCTCTGACATCCTGAACTCT pLKO.1 1290 CDS 100% 3.000 2.100 N CAMK2B n/a
7 TRCN0000000467 GATCATTAAGACCACGGAGCA pLKO.1 1682 CDS 100% 2.160 1.512 N CAMK2B n/a
8 TRCN0000199243 CCTGAGGTCCTTCGCAAAGAG pLKO.1 633 CDS 100% 1.650 1.155 N CAMK2B n/a
9 TRCN0000199539 CGCATGTTTGTGTCTGCCTCG pLKO.1 2148 3UTR 100% 0.400 0.280 N CAMK2B n/a
10 TRCN0000000469 ACAAGAAAGCAGATGGAGTCA pLKO.1 1051 CDS 100% 2.640 1.584 N CAMK2B 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_011515556.1, 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_14563 pDONR223 93.6% 75.2% 71.9% None (many diffs) n/a
2 ccsbBroad304_14563 pLX_304 0% 75.2% 71.9% V5 (many diffs) n/a
3 TRCN0000468031 AGCATTTCATGGTGGACCTTTAGT pLX_317 28.9% 72.1% 69% V5 (not translated due to frame shift) (many diffs) n/a
4 ccsbBroadEn_14564 pDONR223 0% 75.2% 71.9% None (many diffs) n/a
5 ccsbBroad304_14564 pLX_304 0% 75.2% 71.9% V5 (many diffs) n/a
6 TRCN0000480225 GACAGTGGGGGTGATCTCGGAGCG pLX_317 22.3% 75.2% 71.9% V5 (many diffs) n/a
7 TRCN0000488486 GACCTCCTCAAGAGGCAACGCTGC pLX_317 10.9% 69.6% 69.5% V5 (not translated due to prior stop codon) 947_947delCins73;986_987ins72;1080_1580del n/a
8 TRCN0000489411 AAGTGGCATAGCCCCCTCAAGCTG pLX_317 20.6% 69.5% 69.4% V5 (many diffs) n/a
9 ccsbBroadEn_14566 pDONR223 100% 62.3% 34.9% None (many diffs) n/a
10 ccsbBroad304_14566 pLX_304 0% 62.3% 34.9% V5 (not translated due to prior stop codon) (many diffs) n/a
11 TRCN0000480621 AAGACTGTGGCACCAACTCCCGCC pLX_317 29.4% 62.3% 34.9% V5 (not translated due to prior stop codon) (many diffs) n/a
12 ccsbBroadEn_14562 pDONR223 100% 58.2% 31.4% None (many diffs) n/a
13 ccsbBroad304_14562 pLX_304 0% 58.2% 31.4% V5 (not translated due to prior stop codon) (many diffs) n/a
14 TRCN0000474396 TAATTGTTATTCACCCAAGAGACT pLX_317 23.8% 58.2% 31.4% V5 (not translated due to prior stop codon) (many diffs) n/a
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