Transcript: Mouse NM_172498.3

Mus musculus PTK2 protein tyrosine kinase 2 beta (Ptk2b), transcript variant 3, mRNA.

Source:
NCBI, updated 2017-06-26
Taxon:
Mus musculus (mouse)
Gene:
Ptk2b (19229)
Length:
3925
CDS:
208..3111

Additional Resources:

NCBI RefSeq record:
NM_172498.3
NBCI Gene record:
Ptk2b (19229)

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.

No results found.

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

This list includes all shRNAs that have a perfect SDR[?] match to Mouse NM_172498.3, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000361441 ATTGAGGACGAAGACTATTAC pLKO_005 1927 CDS 100% 13.200 18.480 N Ptk2b n/a
2 TRCN0000023633 CCTCGTGTACCACAATGTCAT pLKO.1 2715 CDS 100% 4.950 6.930 N Ptk2b n/a
3 TRCN0000023630 GCCTGTCCTTTACACACTCAT pLKO.1 2160 CDS 100% 4.950 6.930 N Ptk2b n/a
4 TRCN0000023632 GCTGACAAGTCAAGATACAAA pLKO.1 1071 CDS 100% 5.625 4.500 N Ptk2b n/a
5 TRCN0000023631 CCTCAGTGACATTTATCAGAT pLKO.1 2241 CDS 100% 4.950 3.960 N Ptk2b n/a
6 TRCN0000361378 ACACTACCTGGAACGAAATAA pLKO_005 1740 CDS 100% 15.000 10.500 N Ptk2b n/a
7 TRCN0000361440 ATCATGGAACTGTATCCTTAT pLKO_005 1708 CDS 100% 10.800 7.560 N Ptk2b n/a
8 TRCN0000361379 ATGCTTGGACCCTATGGTTTA pLKO_005 2562 CDS 100% 10.800 7.560 N Ptk2b n/a
9 TRCN0000195241 CATTCAAGGATGGAACATTAC pLKO.1 1014 CDS 100% 10.800 7.560 N PTK2B n/a
10 TRCN0000023629 CCAACTTTGAACTCCTGGAAA pLKO.1 803 CDS 100% 4.950 3.465 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 NM_172498.3, 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.

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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 TRCN0000489846 CACTGTCACTTCCGTACACGCGCC pLX_317 12.9% 85.3% 91.2% V5 (not translated due to prior stop codon) (many diffs) n/a
2 ccsbBroadEn_14635 pDONR223 0% 85.3% 91.2% None (many diffs) n/a
3 ccsbBroad304_14635 pLX_304 0% 85.3% 91.2% V5 (many diffs) n/a
4 TRCN0000472345 TTCCCCCAATCCGGTCCGTAGCTT pLX_317 9.5% 85.2% 91.1% V5 (many diffs) n/a
5 TRCN0000480167 TTGGATCGGCTGCCGTGCACAATT pLX_317 12.8% 85.2% 91.1% V5 (many diffs) n/a
6 TRCN0000489596 CGTATTCTTTATGGATGTCTAACC pLX_317 13.6% 85.3% 91.1% V5 (not translated due to prior stop codon) (many diffs) n/a
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