Transcript: Human XM_005273447.4

PREDICTED: Homo sapiens protein tyrosine kinase 2 beta (PTK2B), transcript variant X2, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
PTK2B (2185)
Length:
4079
CDS:
169..3198

Additional Resources:

NCBI RefSeq record:
XM_005273447.4
NBCI Gene record:
PTK2B (2185)

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 BRDN0001148298 TTGGTAAAAATAGAGCAGCG pXPR_003 TGG 451 15% 4 0.5247 PTK2B PTK2B 76387
2 BRDN0001148546 ATGAGGGTATAAAGGACCGG pXPR_003 TGG 1956 65% 21 0.4461 PTK2B PTK2B 76386
3 BRDN0001147875 GGTCCTGAATCGTATTCTTG pXPR_003 GGG 1291 43% 15 0.3357 PTK2B PTK2B 76388
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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_005273447.4, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000231521 TGCAGCCTCAGTGACGTTTAT pLKO_005 2197 CDS 100% 13.200 18.480 N PTK2B n/a
2 TRCN0000194657 CCTAGCTTTATATATGGACAT pLKO.1 3525 3UTR 100% 4.050 5.670 N PTK2B n/a
3 TRCN0000010545 TCGAGTAAAGTTGGGCACGTT pLKO.1 195 CDS 100% 2.640 3.696 N PTK2B n/a
4 TRCN0000199771 GCCGTCATCTTCACGGACAGA pLKO.1 2961 CDS 100% 0.880 1.232 N PTK2B n/a
5 TRCN0000231523 ATGGACATGGCAGGCCGATTT pLKO_005 3538 3UTR 100% 10.800 8.640 N PTK2B n/a
6 TRCN0000231520 CATTGAGGACGAGGACTATTA pLKO_005 1887 CDS 100% 13.200 9.240 N PTK2B n/a
7 TRCN0000195241 CATTCAAGGATGGAACATTAC pLKO.1 975 CDS 100% 10.800 7.560 N PTK2B n/a
8 TRCN0000231522 GAGTATCCATCTCCCGTTAAC pLKO_005 2431 CDS 100% 10.800 7.560 N PTK2B n/a
9 TRCN0000231519 GATGTGGTCCTGAATCGTATT pLKO_005 1438 CDS 100% 10.800 7.560 N PTK2B n/a
10 TRCN0000000769 CGTGAAGATGTGGTCCTGAAT pLKO.1 1432 CDS 100% 4.950 3.465 N PTK2B n/a
11 TRCN0000196917 GATGACCTGGTGTACCTCAAT pLKO.1 2797 CDS 100% 4.950 3.465 N PTK2B n/a
12 TRCN0000199334 CGTATCCTCAAGGTCTGCTTC pLKO.1 283 CDS 100% 4.050 2.835 N PTK2B n/a
13 TRCN0000000771 CAAGGCTCTCTCATCATCCAT pLKO.1 1243 CDS 100% 3.000 2.100 N PTK2B n/a
14 TRCN0000010544 TAATGTGAGTTTGGTCTGGAC pLKO.1 3712 3UTR 100% 2.160 1.512 N PTK2B n/a
15 TRCN0000199706 GCCTTGCTGTTGGTCATGTGG pLKO.1 3257 3UTR 100% 0.880 0.616 N PTK2B n/a
16 TRCN0000000770 CTTTGGTCTTTCCCGGTACAT pLKO.1 1869 CDS 100% 4.950 2.970 N PTK2B 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_005273447.4, 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_14635 pDONR223 0% 100% 100% None n/a
2 ccsbBroad304_14635 pLX_304 0% 100% 100% V5 n/a
3 TRCN0000472345 TTCCCCCAATCCGGTCCGTAGCTT pLX_317 9.5% 99.8% 99.9% V5 (many diffs) n/a
4 TRCN0000480167 TTGGATCGGCTGCCGTGCACAATT pLX_317 12.8% 99.8% 99.9% V5 (many diffs) n/a
5 TRCN0000489846 CACTGTCACTTCCGTACACGCGCC pLX_317 12.9% 99.8% 100% V5 (not translated due to prior stop codon) (many diffs) n/a
6 TRCN0000489596 CGTATTCTTTATGGATGTCTAACC pLX_317 13.6% 99.8% 99.9% V5 (not translated due to prior stop codon) (many diffs) n/a
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