Transcript: Mouse XM_006530204.2

PREDICTED: Mus musculus paxillin (Pxn), transcript variant X2, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Pxn (19303)
Length:
5265
CDS:
546..3413

Additional Resources:

NCBI RefSeq record:
XM_006530204.2
NBCI Gene record:
Pxn (19303)

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 XM_006530204.2, 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 TRCN0000097197 CTACTCCTACCCAACTGGAAA pLKO.1 236 5UTR 100% 4.950 6.930 N Pxn n/a
2 TRCN0000097195 TCTGAACTTGACCGGCTGTTA pLKO.1 573 CDS 100% 4.950 6.930 N Pxn n/a
3 TRCN0000308361 TCTGAACTTGACCGGCTGTTA pLKO_005 573 CDS 100% 4.950 6.930 N Pxn n/a
4 TRCN0000311221 ACGGACCCATCCTGGATAAAG pLKO_005 2899 CDS 100% 13.200 10.560 N Pxn n/a
5 TRCN0000305025 ACTAGACAATGCCAGCATAAA pLKO_005 3814 3UTR 100% 13.200 10.560 N Pxn n/a
6 TRCN0000097196 TCGTAAAGATTACTTCGACAT pLKO.1 3029 CDS 100% 4.050 3.240 N Pxn n/a
7 TRCN0000308432 TCGTAAAGATTACTTCGACAT pLKO_005 3029 CDS 100% 4.050 3.240 N Pxn n/a
8 TRCN0000123138 ACCCAACTGGAAACCACACAT pLKO.1 244 5UTR 100% 4.950 3.465 N PXN n/a
9 TRCN0000286555 ACCCAACTGGAAACCACACAT pLKO_005 244 5UTR 100% 4.950 3.465 N PXN n/a
10 TRCN0000123136 CCCAACTGGAAACCACACATA pLKO.1 245 5UTR 100% 4.950 3.465 N PXN n/a
11 TRCN0000097194 GAACTACATTTCAGCCCTCAA pLKO.1 3092 CDS 100% 4.050 2.835 N Pxn n/a
12 TRCN0000308431 GAACTACATTTCAGCCCTCAA pLKO_005 3092 CDS 100% 4.050 2.835 N Pxn n/a
13 TRCN0000097198 CTTTAGATCAGTGGCAGCCTA pLKO.1 340 5UTR 100% 2.640 1.848 N Pxn 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_006530204.2, 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_06826 pDONR223 100% 46.1% 37.6% None (many diffs) n/a
2 ccsbBroad304_06826 pLX_304 0% 46.1% 37.6% V5 (many diffs) n/a
3 TRCN0000477826 GCCAGAAGTTGGATACTCGACTGT pLX_317 18.8% 46.1% 37.6% V5 (many diffs) n/a
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