Transcript: Mouse NM_008476.3

Mus musculus keratin 6A (Krt6a), mRNA.

Source:
NCBI, updated 2017-06-25
Taxon:
Mus musculus (mouse)
Gene:
Krt6a (16687)
Length:
2287
CDS:
58..1719

Additional Resources:

NCBI RefSeq record:
NM_008476.3
NBCI Gene record:
Krt6a (16687)

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_008476.3, 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 TRCN0000089685 CAACTTCTTGAGAGCTCTCTA pLKO.1 909 CDS 100% 4.950 3.465 N Krt6a n/a
2 TRCN0000089684 GCAGACAGTCTAACAGATGAT pLKO.1 886 CDS 100% 4.950 3.465 N Krt6a n/a
3 TRCN0000089687 GCCTACATGAACAAAGTTGAA pLKO.1 853 CDS 100% 4.950 3.465 N Krt6a n/a
4 TRCN0000089683 CCTGTGAGCTTACATCACAAT pLKO.1 1911 3UTR 100% 0.495 0.347 N Krt6a n/a
5 TRCN0000089686 CCTCAGCTCTTCTACCATCAA pLKO.1 1656 CDS 100% 4.950 2.970 N Krt6a n/a
6 TRCN0000089949 GAGGACTACAAGAGCAAATAT pLKO.1 763 CDS 100% 15.000 7.500 Y Krt6b n/a
7 TRCN0000082892 GCACAGCAGCAGAGAATGAAT pLKO.1 803 CDS 100% 5.625 2.813 Y KRT6B n/a
8 TRCN0000084030 CAACAAGTTTGCCTCCTTCAT pLKO.1 537 CDS 100% 4.950 2.475 Y KRT6A n/a
9 TRCN0000089952 CCAGGAACTCATGAATGTCAA pLKO.1 1368 CDS 100% 4.950 2.475 Y Krt6b n/a
10 TRCN0000062387 GCAGATCAAGACCCTCAACAA pLKO.1 519 CDS 100% 4.950 2.475 Y KRT8 n/a
11 TRCN0000082890 GCAGGAGATTGCTGAGATCAA pLKO.1 1158 CDS 100% 4.950 2.475 Y KRT6B n/a
12 TRCN0000089948 GCCTATGTTTGAGCAGTACAT pLKO.1 657 CDS 100% 4.950 2.475 Y Krt6b n/a
13 TRCN0000082891 CAACAACAAGTTTGCCTCCTT pLKO.1 534 CDS 100% 2.640 1.320 Y KRT6B n/a
14 TRCN0000117160 GATTGCTGAGATCAACCGCAT pLKO.1 1164 CDS 100% 2.160 1.080 Y KRT6C n/a
15 TRCN0000116954 CCTCCTTCATCGACAAGGTAT pLKO.1 548 CDS 100% 4.950 2.475 Y KRT8P11 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_008476.3, 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 ccsbBroadEn_00917 pDONR223 100% 85.8% 86.3% None (many diffs) n/a
2 ccsbBroad304_00917 pLX_304 0% 85.8% 86.3% V5 (many diffs) n/a
3 TRCN0000480819 CTCAAGTAGGTGTTGGGCCCCGTA pLX_317 25.9% 85.8% 86.3% V5 (many diffs) n/a
4 ccsbBroadEn_06504 pDONR223 100% 85.7% 86.5% None (many diffs) n/a
5 ccsbBroad304_06504 pLX_304 0% 85.7% 86.5% V5 (many diffs) n/a
6 TRCN0000472613 CTATACTGCCCATCTAAAAGCGTC pLX_317 28.6% 85.7% 86.5% V5 (many diffs) n/a
7 ccsbBroadEn_09991 pDONR223 100% 85.5% 85.6% None (many diffs) n/a
8 ccsbBroad304_09991 pLX_304 0% 85.5% 85.6% V5 (many diffs) n/a
9 TRCN0000477553 GCCTGCTACAGTAGCATCGTCAGT pLX_317 2% 85.5% 85.6% V5 (many diffs) n/a
10 ccsbBroadEn_00918 pDONR223 100% 85.4% 85.8% None (many diffs) n/a
11 ccsbBroad304_00918 pLX_304 0% 85.4% 85.8% V5 (many diffs) n/a
12 TRCN0000471071 TGATATTCAATCGGTACTACCACA pLX_317 28.6% 85.4% 85.8% V5 (many diffs) n/a
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