Transcript: Mouse NM_001305222.1

Mus musculus circadian locomotor output cycles kaput (Clock), transcript variant 3, mRNA.

Source:
NCBI, updated 2017-06-15
Taxon:
Mus musculus (mouse)
Gene:
Clock (12753)
Length:
9617
CDS:
208..2772

Additional Resources:

NCBI RefSeq record:
NM_001305222.1
NBCI Gene record:
Clock (12753)

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_001305222.1, 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 TRCN0000306475 GTGCTTCAGATGTCCATTAAA pLKO_005 2919 3UTR 100% 15.000 12.000 N Clock n/a
2 TRCN0000095686 CGGATGATAGAGGCAAATATT pLKO.1 1810 CDS 100% 15.000 10.500 N Clock n/a
3 TRCN0000095688 GAGAACATTCAGAGGTTTATA pLKO.1 689 CDS 100% 15.000 10.500 N Clock n/a
4 TRCN0000095687 CACGGATGATAGAGGCAAATA pLKO.1 1808 CDS 100% 13.200 9.240 N Clock n/a
5 TRCN0000354150 CACGGATGATAGAGGCAAATA pLKO_005 1808 CDS 100% 13.200 9.240 N Clock n/a
6 TRCN0000306420 CAGGACAGACAGATAAGATTT pLKO_005 2281 CDS 100% 13.200 9.240 N Clock n/a
7 TRCN0000306474 CTTCAGCAGTCAGTCCATAAA pLKO_005 1644 CDS 100% 13.200 9.240 N Clock n/a
8 TRCN0000311544 GGGAACATCAGGCTATGATTA pLKO_005 1122 CDS 100% 13.200 9.240 N Clock n/a
9 TRCN0000095684 CCACAGTTTAAGAGCATCATT pLKO.1 6578 3UTR 100% 5.625 3.938 N Clock n/a
10 TRCN0000095685 GCACCACCAATAATAGGCTAT pLKO.1 1084 CDS 100% 4.050 2.835 N Clock 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_001305222.1, 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_02201 pDONR223 100% 89.2% 94.6% None (many diffs) n/a
2 ccsbBroad304_02201 pLX_304 26.6% 89.2% 94.6% V5 (many diffs) n/a
3 TRCN0000477413 GTCAACCAAAAGGACTTGCGATCT pLX_317 20.4% 89.2% 94.6% V5 (many diffs) n/a
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