Transcript: Human XM_005249862.3

PREDICTED: Homo sapiens calcium/calmodulin dependent protein kinase II beta (CAMK2B), transcript variant X18, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CAMK2B (816)
Length:
1850
CDS:
87..1670

Additional Resources:

NCBI RefSeq record:
XM_005249862.3
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 6% 2 0.5392 CAMK2B CAMK2B 77743
2 BRDN0001148038 GTCCTTCGCAAAGAGGCGTA pXPR_003 TGG 569 36% 8 0.0828 CAMK2B CAMK2B 77744
3 BRDN0001148102 CTCACCTGAGAAATTCCGTG pXPR_003 TGG 934 59% 12 -0.3865 CAMK2B CAMK2B 77742
Download CSV

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

This list includes all shRNAs that have a perfect SDR[?] match to Human XM_005249862.3, 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 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 1803 3UTR 100% 13.200 10.560 N CAMK2B n/a
3 TRCN0000195670 CCGGAAGCAGGAGATCATTAA pLKO.1 1268 CDS 100% 13.200 9.240 N CAMK2B n/a
4 TRCN0000219643 ATAGAGGATGAAGACGCTAAA pLKO.1 1245 CDS 100% 10.800 7.560 N CAMK2B n/a
5 TRCN0000000467 GATCATTAAGACCACGGAGCA pLKO.1 1280 CDS 100% 2.160 1.512 N CAMK2B n/a
6 TRCN0000199243 CCTGAGGTCCTTCGCAAAGAG pLKO.1 633 CDS 100% 1.650 1.155 N CAMK2B n/a
7 TRCN0000199539 CGCATGTTTGTGTCTGCCTCG pLKO.1 1746 3UTR 100% 0.400 0.280 N CAMK2B n/a
8 TRCN0000000469 ACAAGAAAGCAGATGGAGTCA pLKO.1 1123 CDS 100% 2.640 1.584 N CAMK2B n/a
Download CSV

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_005249862.3, 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.

Download CSV

All ORF constructs matching this transcript

Clone ID DNA Barcode Vector Sequenced %[?] Nuc. Match %[?] Prot. Match %[?] Epitope Tag Match Diffs[?] Addgene[?]
1 TRCN0000488486 GACCTCCTCAAGAGGCAACGCTGC pLX_317 10.9% 97.2% 97.2% V5 (not translated due to prior stop codon) 1130_1131ins45 n/a
2 TRCN0000489411 AAGTGGCATAGCCCCCTCAAGCTG pLX_317 20.6% 97.1% 97% V5 1130_1131ins45;1581_1582insG n/a
3 ccsbBroadEn_14563 pDONR223 93.6% 95.3% 95.2% None 947_1019delinsC n/a
4 ccsbBroad304_14563 pLX_304 0% 95.3% 95.2% V5 947_1019delinsC n/a
5 TRCN0000468031 AGCATTTCATGGTGGACCTTTAGT pLX_317 28.9% 91.5% 91.4% V5 (not translated due to frame shift) (many diffs) n/a
6 ccsbBroadEn_14564 pDONR223 0% 95.3% 95.2% None 947_1019delinsC n/a
7 ccsbBroad304_14564 pLX_304 0% 95.3% 95.2% V5 947_1019delinsC n/a
8 TRCN0000480225 GACAGTGGGGGTGATCTCGGAGCG pLX_317 22.3% 95.3% 95.2% V5 947_1019delinsC n/a
9 TRCN0000489162 ACTTTTCATACCCTAGATACCCAC pLX_317 21.2% 73% 77.6% V5 (not translated due to prior stop codon) (many diffs) n/a
10 ccsbBroadEn_14566 pDONR223 100% 73% 43.8% None (many diffs) n/a
11 ccsbBroad304_14566 pLX_304 0% 73% 43.8% V5 (not translated due to prior stop codon) (many diffs) n/a
12 TRCN0000480621 AAGACTGTGGCACCAACTCCCGCC pLX_317 29.4% 73% 43.8% V5 (not translated due to prior stop codon) (many diffs) n/a
13 TRCN0000489374 GACATACGTTCGACTGTGGTTCTC pLX_317 23.3% 73% 77.6% V5 (many diffs) n/a
14 ccsbBroadEn_14562 pDONR223 100% 72.9% 39.4% None (many diffs) n/a
15 ccsbBroad304_14562 pLX_304 0% 72.9% 39.4% V5 (not translated due to prior stop codon) (many diffs) n/a
16 TRCN0000474396 TAATTGTTATTCACCCAAGAGACT pLX_317 23.8% 72.9% 39.4% V5 (not translated due to prior stop codon) (many diffs) n/a
Download CSV