Transcript: Mouse XM_011249755.2

PREDICTED: Mus musculus serine/arginine-rich protein specific kinase 2 (Srpk2), transcript variant X6, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Srpk2 (20817)
Length:
3766
CDS:
229..2370

Additional Resources:

NCBI RefSeq record:
XM_011249755.2
NBCI Gene record:
Srpk2 (20817)

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 BRDN0001145577 TCTTCACACAACGTACTGGG pXPR_003 AGG 551 26% 8 0.5004 Srpk2 SRPK2 75599
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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 Mouse XM_011249755.2, 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 TRCN0000361471 GCTCGCCACAGGAGACTATTT pLKO_005 1938 CDS 100% 13.200 18.480 N Srpk2 n/a
2 TRCN0000023166 CCAAACAAAGACATGGTAGTT pLKO.1 640 CDS 100% 4.950 6.930 N Srpk2 n/a
3 TRCN0000023164 GCAGAGAGTGATTACACGTAT pLKO.1 1486 CDS 100% 4.950 6.930 N Srpk2 n/a
4 TRCN0000023165 GATCTCTTCAATGGTCGATAT pLKO.1 445 CDS 100% 10.800 8.640 N Srpk2 n/a
5 TRCN0000006277 CGTTGTGTGAAGAGTATCATT pLKO.1 784 CDS 100% 5.625 4.500 N SRPK2 n/a
6 TRCN0000277860 CGTTGTGTGAAGAGTATCATT pLKO_005 784 CDS 100% 5.625 4.500 N SRPK2 n/a
7 TRCN0000361474 ACATGGTAGTTCAGCTAATTG pLKO_005 650 CDS 100% 13.200 9.240 N Srpk2 n/a
8 TRCN0000361472 GCAAATCCCGAGGAGTATAAC pLKO_005 1450 CDS 100% 13.200 9.240 N Srpk2 n/a
9 TRCN0000361544 TGTCTTCAGCTAAGTAGTTTA pLKO_005 2560 3UTR 100% 13.200 9.240 N Srpk2 n/a
10 TRCN0000361473 TAGCATTCTGAGCTAGCAAAT pLKO_005 2386 3UTR 100% 10.800 7.560 N Srpk2 n/a
11 TRCN0000197040 GAGACAGCCTTGGATGAAATA pLKO.1 580 CDS 100% 13.200 9.240 N SRPK2 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_011249755.2, 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_01594 pDONR223 100% 86% 90.1% None (many diffs) n/a
2 ccsbBroad304_01594 pLX_304 0% 86% 90.1% V5 (many diffs) n/a
3 ccsbBroadEn_14847 pDONR223 0% 86% 90.1% None (many diffs) n/a
4 ccsbBroad304_14847 pLX_304 0% 86% 90.1% V5 (many diffs) n/a
5 TRCN0000466082 GGAGGCGATTGTTTTCGAACATGA pLX_317 15.5% 85.9% 90% V5 (many diffs) n/a
6 TRCN0000489739 AGAACCGGCTTCTTCCAGTACGTG pLX_317 21.4% 86% 90.1% V5 (not translated due to prior stop codon) (many diffs) n/a
7 TRCN0000489410 TGGGACTGCATACCAAAGATACGG pLX_317 16.7% 85.9% 90% V5 (many diffs) n/a
8 ccsbBroadEn_06999 pDONR223 100% 85.8% 89.8% None (many diffs) n/a
9 ccsbBroad304_06999 pLX_304 0% 85.8% 89.8% V5 (many diffs) n/a
10 TRCN0000473240 CAAGGCTGTACCTCATATTCCTAA pLX_317 19% 85.8% 89.8% V5 (many diffs) n/a
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