Transcript: Mouse NR_033589.1

Mus musculus high mobility group box 1, related sequence 17 (Hmgb1-rs17), non-coding RNA.

Source:
NCBI, updated 2013-07-16
Taxon:
Mus musculus (mouse)
Gene:
Hmgb1-rs17 (628431)
Length:
1447
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
NR_033589.1
NBCI Gene record:
Hmgb1-rs17 (628431)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the exonic sequence of this non-coding 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 NR_033589.1, 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 TRCN0000347150 GTTGGTGCACAGCACAAATTA pLKO_005 1210 3UTR 100% 15.000 7.500 Y Hmgb1-ps7 n/a
2 TRCN0000365913 GAAGATGATGATGATGAATAA pLKO_005 745 3UTR 100% 13.200 6.600 Y Hmgb1 n/a
3 TRCN0000092693 GCACAGCACAAATTAGTTATA pLKO.1 1216 3UTR 100% 13.200 6.600 Y Hmgb1-ps7 n/a
4 TRCN0000374090 TTGGTGCACAGCACAAATTAG pLKO_005 1211 3UTR 100% 13.200 6.600 Y Hmgb1 n/a
5 TRCN0000347151 AGGCTGACAAGGCTCGTTATG pLKO_005 338 3UTR 100% 10.800 5.400 Y Hmgb1-ps7 n/a
6 TRCN0000365912 TGACAAGGCTCGTTATGAAAG pLKO_005 342 3UTR 100% 10.800 5.400 Y Hmgb1 n/a
7 TRCN0000093109 ACTAGGAGAGATGTGGAACAA pLKO.1 528 3UTR 100% 4.950 2.475 Y LOC433185 n/a
8 TRCN0000092697 AGGCTCGTTATGAAAGAGAAA pLKO.1 347 3UTR 100% 4.950 2.475 Y Hmgb1-ps7 n/a
9 TRCN0000093080 CCCGGATGCTTCTGTCAACTT pLKO.1 237 3UTR 100% 4.950 2.475 Y Gm5518 n/a
10 TRCN0000374093 CGGATGCTTCTGTCAACTTCT pLKO_005 239 3UTR 100% 4.950 2.475 Y Hmgb1 n/a
11 TRCN0000092710 CTTCTTGTTCTGTTCTGAGTA pLKO.1 450 3UTR 100% 4.950 2.475 Y LOC383761 n/a
12 TRCN0000093112 TGCAAAGAAACTAGGAGAGAT pLKO.1 519 3UTR 100% 4.950 2.475 Y LOC433185 n/a
13 TRCN0000071425 CCTGGCTTATCCATTGGTGAT pLKO.1 496 3UTR 100% 4.050 2.025 Y Hmgb1 n/a
14 TRCN0000093108 GCTCGTTATGAAAGAGAAATA pLKO.1 349 3UTR 100% 13.200 6.600 Y LOC433185 n/a
15 TRCN0000071424 GCCAAGCTGAAGGAGAAGTAT pLKO.1 589 3UTR 100% 5.625 2.813 Y Hmgb1 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 NR_033589.1, 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 TRCN0000471608 TGTAATATTACCATGCAATTGTTG pLX_317 34.2% 37.7% V5 (many diffs) n/a
2 ccsbBroadEn_06381 pDONR223 100% 37.6% None (many diffs) n/a
3 ccsbBroad304_06381 pLX_304 0% 37.6% V5 (many diffs) n/a
4 ccsbBroadEn_14961 pDONR223 60% 37.3% None (many diffs) n/a
5 ccsbBroad304_14961 pLX_304 0% 37.3% V5 (many diffs) n/a
6 TRCN0000472460 CAGTTATAATCGGCCCACAAAGCC pLX_317 60.9% 37.3% V5 (many diffs) n/a
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