Transcript: Mouse NM_197982.3

Mus musculus DEAD (Asp-Glu-Ala-Asp) box polypeptide 39 (Ddx39), mRNA.

Source:
NCBI, updated 2017-05-28
Taxon:
Mus musculus (mouse)
Gene:
Ddx39 (68278)
Length:
1659
CDS:
166..1449

Additional Resources:

NCBI RefSeq record:
NM_197982.3
NBCI Gene record:
Ddx39 (68278)

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_197982.3, 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 TRCN0000071095 GCAGTATTACGTCAAGCTCAA pLKO.1 951 CDS 100% 4.050 5.670 N Ddx39 n/a
2 TRCN0000316389 GCAGTATTACGTCAAGCTCAA pLKO_005 951 CDS 100% 4.050 5.670 N Ddx39 n/a
3 TRCN0000071094 CGAGAAGCAGTGTATGATGTT pLKO.1 822 CDS 100% 4.950 3.465 N Ddx39 n/a
4 TRCN0000316461 CGAGAAGCAGTGTATGATGTT pLKO_005 822 CDS 100% 4.950 3.465 N Ddx39 n/a
5 TRCN0000071093 GCGAGTCAACATTGTCTTCAA pLKO.1 1224 CDS 100% 4.950 3.465 N Ddx39 n/a
6 TRCN0000316458 GCGAGTCAACATTGTCTTCAA pLKO_005 1224 CDS 100% 4.950 3.465 N Ddx39 n/a
7 TRCN0000071096 CAAAGGATCTTATGTCTCCAT pLKO.1 267 CDS 100% 2.640 1.848 N Ddx39 n/a
8 TRCN0000316460 CAAAGGATCTTATGTCTCCAT pLKO_005 267 CDS 100% 2.640 1.848 N Ddx39 n/a
9 TRCN0000071097 GAAGTGAATGTAGCTGAGCTT pLKO.1 1384 CDS 100% 2.640 1.848 N Ddx39 n/a
10 TRCN0000316396 GAAGTGAATGTAGCTGAGCTT pLKO_005 1384 CDS 100% 2.640 1.848 N Ddx39 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_197982.3, 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_02356 pDONR223 100% 88.9% 97.1% None (many diffs) n/a
2 ccsbBroad304_02356 pLX_304 0% 88.9% 97.1% V5 (many diffs) n/a
3 TRCN0000470322 TTAATGTTGTCGGCCGCCTCAATT pLX_317 28.9% 88.9% 97.1% V5 (many diffs) n/a
4 ccsbBroadEn_07187 pDONR223 100% 80% 90.4% None (many diffs) n/a
5 ccsbBroad304_07187 pLX_304 0% 80% 90.4% V5 (many diffs) n/a
6 TRCN0000471716 TTGTCGAATTCGCCTCTGGCGCAG pLX_317 31.2% 80% 90.4% V5 (many diffs) n/a
7 ccsbBroadEn_11470 pDONR223 100% 67.4% 65.9% None (many diffs) n/a
8 ccsbBroad304_11470 pLX_304 0% 67.4% 65.9% V5 (many diffs) n/a
9 TRCN0000466838 GTCACAGCACGTCTCTGGGCGGCA pLX_317 34.4% 67.4% 65.9% V5 (many diffs) n/a
10 ccsbBroadEn_11471 pDONR223 100% 61.8% 53.8% None (many diffs) n/a
11 ccsbBroad304_11471 pLX_304 0% 61.8% 53.8% V5 (many diffs) n/a
12 TRCN0000469434 GTTTCGAAGAAGGCTGTTATGCAT pLX_317 41.6% 61.8% 53.8% V5 (many diffs) n/a
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