Transcript: Mouse NM_011341.5

Mus musculus stromal cell derived factor 4 (Sdf4), transcript variant 1, mRNA.

Source:
NCBI, updated 2017-06-04
Taxon:
Mus musculus (mouse)
Gene:
Sdf4 (20318)
Length:
5255
CDS:
500..1585

Additional Resources:

NCBI RefSeq record:
NM_011341.5
NBCI Gene record:
Sdf4 (20318)

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_011341.5, 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 TRCN0000114821 GCCCAGGTTTATTAAAGATAT pLKO.1 1812 3UTR 100% 13.200 9.240 N Sdf4 n/a
2 TRCN0000319869 GCCCAGGTTTATTAAAGATAT pLKO_005 1812 3UTR 100% 13.200 9.240 N Sdf4 n/a
3 TRCN0000056056 CAACTGGGTGAAAGACAGAAA pLKO.1 1324 CDS 100% 4.950 3.465 N SDF4 n/a
4 TRCN0000114822 CCTCAAGTACAGTGAGTTCTT pLKO.1 1513 CDS 100% 4.950 3.465 N Sdf4 n/a
5 TRCN0000350128 CCTCAAGTACAGTGAGTTCTT pLKO_005 1513 CDS 100% 4.950 3.465 N Sdf4 n/a
6 TRCN0000114824 GCCAAGACATTGATGACAACT pLKO.1 1308 CDS 100% 4.950 3.465 N Sdf4 n/a
7 TRCN0000319817 GCCAAGACATTGATGACAACT pLKO_005 1308 CDS 100% 4.950 3.465 N Sdf4 n/a
8 TRCN0000114825 CATGCTCAAGTTCATGGTCAA pLKO.1 1192 CDS 100% 4.050 2.835 N Sdf4 n/a
9 TRCN0000319816 CATGCTCAAGTTCATGGTCAA pLKO_005 1192 CDS 100% 4.050 2.835 N Sdf4 n/a
10 TRCN0000114823 CACCTCAACAAGGACTTCCAT pLKO.1 710 CDS 100% 3.000 2.100 N Sdf4 n/a
11 TRCN0000350127 CACCTCAACAAGGACTTCCAT pLKO_005 710 CDS 100% 3.000 2.100 N Sdf4 n/a
12 TRCN0000056057 CCGGAGGAAGCTGATGGTCAT pLKO.1 793 CDS 100% 1.350 0.945 N SDF4 n/a
13 TRCN0000166364 CACACACACACACACACACAA pLKO.1 4667 3UTR 100% 4.950 2.475 Y KAAG1 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_011341.5, 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_08233 pDONR223 100% 82.8% 87% None (many diffs) n/a
2 ccsbBroad304_08233 pLX_304 0% 82.8% 87% V5 (many diffs) n/a
3 TRCN0000479256 AAAAACGTTCGGCATAACTCACAC pLX_317 32.7% 82.8% 87% V5 (many diffs) n/a
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