Transcript: Mouse XM_006503420.2

PREDICTED: Mus musculus single-stranded DNA binding protein 3 (Ssbp3), transcript variant X9, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Ssbp3 (72475)
Length:
3619
CDS:
1157..1978

Additional Resources:

NCBI RefSeq record:
XM_006503420.2
NBCI Gene record:
Ssbp3 (72475)

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_006503420.2, 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 TRCN0000084364 CGACAATTATTCTCCGAGCAT pLKO.1 1942 CDS 100% 2.640 2.112 N Ssbp3 n/a
2 TRCN0000288079 CGACAATTATTCTCCGAGCAT pLKO_005 1942 CDS 100% 2.640 2.112 N Ssbp3 n/a
3 TRCN0000307559 CAGAAGATGCCAAGAATTATG pLKO_005 2013 3UTR 100% 13.200 9.240 N Ssbp3 n/a
4 TRCN0000016299 CCTAACAACATAAGTGGCATT pLKO.1 1853 CDS 100% 4.050 2.835 N SSBP3 n/a
5 TRCN0000084363 GCAACCAAACAGACACTGTTT pLKO.1 3183 3UTR 100% 0.495 0.347 N Ssbp3 n/a
6 TRCN0000084366 CTCCTTCCAGAACGACAATTA pLKO.1 1930 CDS 100% 13.200 7.920 N Ssbp3 n/a
7 TRCN0000288156 CTCCTTCCAGAACGACAATTA pLKO_005 1930 CDS 100% 13.200 7.920 N Ssbp3 n/a
8 TRCN0000016298 GACAACATCTACACAATGATT pLKO.1 1685 CDS 100% 5.625 3.375 N SSBP3 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_006503420.2, 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_14092 pDONR223 100% 69.9% 1.4% None (many diffs) n/a
2 ccsbBroad304_14092 pLX_304 0% 69.9% 1.4% V5 (not translated due to prior stop codon) (many diffs) n/a
3 TRCN0000474142 ACATGGTAAGTTCTGCATGAAACC pLX_317 77.1% 69.9% 1.4% V5 (not translated due to prior stop codon) (many diffs) n/a
4 ccsbBroadEn_02824 pDONR223 98.5% 58.8% 61% None (many diffs) n/a
5 ccsbBroad304_02824 pLX_304 0% 58.8% 61% V5 (not translated due to prior stop codon) (many diffs) n/a
6 ccsbBroadEn_02823 pDONR223 100% 57.7% 61.2% None (many diffs) n/a
7 ccsbBroad304_02823 pLX_304 0% 57.7% 61.2% V5 (many diffs) n/a
8 TRCN0000466186 GTGGGGAATAAAGAACGGCAATAT pLX_317 29.8% 57.7% 61.2% V5 (many diffs) n/a
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