Transcript: Mouse XM_006530746.3

PREDICTED: Mus musculus SMAD family member 1 (Smad1), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Smad1 (17125)
Length:
3043
CDS:
406..1803

Additional Resources:

NCBI RefSeq record:
XM_006530746.3
NBCI Gene record:
Smad1 (17125)

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 XM_006530746.3, 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 TRCN0000025876 GCCGAGTAACTGCGTCACCAT pLKO.1 585 CDS 100% 0.880 1.232 N Smad1 n/a
2 TRCN0000025910 ACCGTGTATGAACTCACCAAA pLKO.1 1609 CDS 100% 4.950 3.960 N Smad1 n/a
3 TRCN0000277448 ACCGTGTATGAACTCACCAAA pLKO_005 1609 CDS 100% 4.950 3.960 N Smad1 n/a
4 TRCN0000025933 TCCTATTTCATCCGTGTCTTA pLKO.1 1782 CDS 100% 4.950 3.960 N Smad1 n/a
5 TRCN0000285960 TCCTATTTCATCCGTGTCTTA pLKO_005 1782 CDS 100% 4.950 3.960 N Smad1 n/a
6 TRCN0000277377 GACGAAGGAGCCACGATAATA pLKO_005 1887 3UTR 100% 15.000 10.500 N Smad1 n/a
7 TRCN0000277449 GGACTACCTCATGTCATTTAT pLKO_005 649 CDS 100% 15.000 10.500 N Smad1 n/a
8 TRCN0000025963 TGGTGCTCTATTGTGTACTAT pLKO.1 1216 CDS 100% 5.625 3.938 N Smad1 n/a
9 TRCN0000277450 TGGTGCTCTATTGTGTACTAT pLKO_005 1216 CDS 100% 5.625 3.938 N Smad1 n/a
10 TRCN0000025884 CCCATTTGGTTCCAAGCAGAA pLKO.1 738 CDS 100% 4.050 2.835 N Smad1 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_006530746.3, 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_00960 pDONR223 100% 88.9% 99.1% None (many diffs) n/a
2 ccsbBroad304_00960 pLX_304 0% 88.9% 99.1% V5 (many diffs) n/a
3 TRCN0000472003 AGTTCCTACGCTAATACATGCCTT pLX_317 6.2% 88.9% 99.1% V5 (many diffs) n/a
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