Transcript: Mouse NM_023422.3

Mus musculus histone cluster 1, H2bc (Hist1h2bc), transcript variant 1, mRNA.

Source:
NCBI, updated 2017-05-20
Taxon:
Mus musculus (mouse)
Gene:
Hist1h2bc (68024)
Length:
728
CDS:
34..414

Additional Resources:

NCBI RefSeq record:
NM_023422.3
NBCI Gene record:
Hist1h2bc (68024)

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_023422.3, 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 TRCN0000279005 GGGTGATACTAGCAGATTAAC pLKO_005 494 3UTR 100% 13.200 18.480 N Hist1h2bc n/a
2 TRCN0000194179 GACATCGTTTGTACCACTCAA pLKO.1 437 3UTR 100% 4.950 6.930 N Hist1h2bc n/a
3 TRCN0000194006 GAACAACTGAGAAGCACCATT pLKO.1 537 3UTR 100% 4.950 3.465 N Hist1h2bc n/a
4 TRCN0000279069 GAACAACTGAGAAGCACCATT pLKO_005 537 3UTR 100% 4.950 3.465 N Hist1h2bc n/a
5 TRCN0000193469 GTTTCAGAACTCAAGGAACAA pLKO.1 522 3UTR 100% 4.950 3.465 N Hist1h2bc n/a
6 TRCN0000279070 GTTTCAGAACTCAAGGAACAA pLKO_005 522 3UTR 100% 4.950 3.465 N Hist1h2bc n/a
7 TRCN0000176283 GAACTCAAGGAACAACTGAGA pLKO.1 528 3UTR 100% 2.640 1.848 N Hist1h2bc n/a
8 TRCN0000279004 CTGGATGCTGTAACCTCAAGA pLKO_005 463 3UTR 100% 4.950 2.970 N Hist1h2bc n/a
9 TRCN0000297598 TACACCAGCTCCAAGTGATCC pLKO_005 397 CDS 100% 4.050 2.430 N Hist1h2bc n/a
10 TRCN0000096962 CAAGGCCATGGGCATCATGAA pLKO.1 204 CDS 100% 4.950 2.475 Y Hist1h2bn n/a
11 TRCN0000435259 CAGAAGAAGGACGGCAAGAAG pLKO_005 100 CDS 100% 4.950 2.475 Y Hist1h2bg n/a
12 TRCN0000093062 CCAGAAGAAGGACGGCAAGAA pLKO.1 99 CDS 100% 4.950 2.475 Y Hist1h2bk n/a
13 TRCN0000438707 CCAGAAGAAGGACGGCAAGAA pLKO_005 99 CDS 100% 4.950 2.475 Y H2BC15 n/a
14 TRCN0000093117 CTACTCGGTGTACGTGTACAA pLKO.1 144 CDS 100% 4.950 2.475 Y Hist1h2bq n/a
15 TRCN0000282109 GCTACTCGGTGTACGTGTACA pLKO_005 143 CDS 100% 4.950 2.475 Y Hist1h2br n/a
16 TRCN0000446903 TACTCGGTGTACGTGTACAAG pLKO_005 145 CDS 100% 4.950 2.475 Y Hist1h2bg n/a
17 TRCN0000435792 ACAACAAGCGCTCGACCATCA pLKO_005 284 CDS 100% 4.050 2.025 Y Hist1h2bk n/a
18 TRCN0000445772 ACAACAAGCGCTCGACCATCA pLKO_005 284 CDS 100% 4.050 2.025 Y H2BC4 n/a
19 TRCN0000441789 ACGTGTACAAGGTGCTGAAGC pLKO_005 155 CDS 100% 4.050 2.025 Y H2BC13 n/a
20 TRCN0000262205 ATCATGAACTCGTTCGTGAAC pLKO_005 217 CDS 100% 4.050 2.025 Y Hist1h2br n/a
21 TRCN0000093137 CAAGGAGAGCTACTCGGTGTA pLKO.1 135 CDS 100% 4.050 2.025 Y Hist1h2bp n/a
22 TRCN0000093061 CATCATGAACTCGTTCGTGAA pLKO.1 216 CDS 100% 4.050 2.025 Y Hist1h2bk n/a
23 TRCN0000426446 CGTTCGTGAACGACATCTTCG pLKO_005 227 CDS 100% 4.050 2.025 Y Hist1h2bg n/a
24 TRCN0000433475 GAGCTACTCGGTGTACGTGTA pLKO_005 141 CDS 100% 4.050 2.025 Y Hist1h2bk n/a
25 TRCN0000093059 GTACGTGTACAAGGTGCTGAA pLKO.1 153 CDS 100% 4.050 2.025 Y Hist1h2bk n/a
26 TRCN0000262206 TACAACAAGCGCTCGACCATC pLKO_005 283 CDS 100% 4.050 2.025 Y Hist1h2br n/a
27 TRCN0000437414 TACAACAAGCGCTCGACCATC pLKO_005 283 CDS 100% 4.050 2.025 Y H2BC15 n/a
28 TRCN0000375583 TACGTGTACAAGGTGCTGAAG pLKO_005 154 CDS 100% 4.050 2.025 Y Hist1h2bb n/a
29 TRCN0000425656 TACGTGTACAAGGTGCTGAAG pLKO_005 154 CDS 100% 4.050 2.025 Y H2BC15 n/a
30 TRCN0000093135 GTGTACAAGGTGCTGAAGCAA pLKO.1 157 CDS 100% 3.000 1.500 Y Hist1h2bp n/a
31 TRCN0000096945 CACCAAGTACACCAGCTCCAA pLKO.1 390 CDS 100% 2.640 1.320 Y Hist1h2be n/a
32 TRCN0000093115 CATGGGCATCATGAACTCGTT pLKO.1 210 CDS 100% 2.640 1.320 Y Hist1h2bq n/a
33 TRCN0000096972 GCATCATGAACTCGTTCGTGA pLKO.1 215 CDS 100% 2.640 1.320 Y Hist1h2bl n/a
34 TRCN0000429678 GGGCATCATGAACTCGTTCGT pLKO_005 213 CDS 100% 2.640 1.320 Y Hist1h2bg n/a
35 TRCN0000096970 GTTCGTGAACGACATCTTCGA pLKO.1 228 CDS 100% 2.640 1.320 Y Hist1h2bl n/a
36 TRCN0000437950 TTACAACAAGCGCTCGACCAT pLKO_005 282 CDS 100% 2.640 1.320 Y Hist1h2bg n/a
37 TRCN0000093134 GAACGACATCTTCGAGCGCAT pLKO.1 234 CDS 100% 2.160 1.080 Y Hist1h2bp n/a
38 TRCN0000093060 CCCGAAGAAGGGCTCCAAGAA pLKO.1 63 CDS 100% 1.650 0.825 Y Hist1h2bk n/a
39 TRCN0000421762 CCGCCTGGCGCATTACAACAA pLKO_005 270 CDS 100% 1.650 0.825 Y Hist1h2bk n/a
40 TRCN0000096951 CGTGACCAAGGCCCAGAAGAA pLKO.1 87 CDS 100% 1.650 0.825 Y Hist1h2bg n/a
41 TRCN0000096961 CCCAGAAGAAGGACGGCAAGA pLKO.1 98 CDS 100% 1.350 0.675 Y Hist1h2bn n/a
42 TRCN0000096973 GAAGGACGGCAAGAAGCGCAA pLKO.1 105 CDS 100% 0.720 0.360 Y Hist1h2bl n/a
43 TRCN0000093058 CTCGTTCGTGAACGACATCTT pLKO.1 225 CDS 100% 0.495 0.248 Y Hist1h2bk n/a
44 TRCN0000093147 GAACTCGTTCGTGAACGACAT pLKO.1 222 CDS 100% 0.405 0.203 Y Hist1h2bm n/a
45 TRCN0000096969 CGACACCGGCATCTCCTCCAA pLKO.1 186 CDS 100% 0.000 0.000 Y Hist1h2bl n/a
46 TRCN0000093133 CGGCATCTCCTCCAAGGCCAT pLKO.1 192 CDS 100% 0.000 0.000 Y Hist1h2bp n/a
47 TRCN0000096960 GAAGCGCAAGCGCAGCCGCAA pLKO.1 117 CDS 100% 0.000 0.000 Y Hist1h2bn n/a
48 TRCN0000096963 GCGCAGCCGCAAGGAGAGCTA pLKO.1 126 CDS 100% 0.000 0.000 Y Hist1h2bn n/a
49 TRCN0000096977 ATGGGCATCATGAACTCGTTT pLKO.1 211 CDS 100% 4.950 2.475 Y Hist1h2bf n/a
50 TRCN0000096958 GACACCGGCATCTCCTCCAAA pLKO.1 187 CDS 100% 1.650 0.825 Y Hist1h2bh n/a
51 TRCN0000093066 TCGTTCGTGAACGACATCTTT pLKO.1 226 CDS 100% 0.563 0.281 Y Hist1h2bb 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_023422.3, 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_01898 pDONR223 100% 94.1% 99.2% None (many diffs) n/a
2 ccsbBroad304_01898 pLX_304 0% 94.1% 99.2% V5 (many diffs) n/a
3 TRCN0000469156 CCCGCACAGGGATTAGCAAAGTTG pLX_317 89.9% 94.1% 99.2% V5 (many diffs) n/a
4 ccsbBroadEn_04472 pDONR223 100% 92.8% 99.2% None (many diffs) n/a
5 ccsbBroad304_04472 pLX_304 0% 92.8% 99.2% V5 (many diffs) n/a
6 TRCN0000471184 TCCCCACAGAAAAAGCTTCGCGAC pLX_317 82.9% 92.8% 99.2% V5 (many diffs) n/a
7 ccsbBroadEn_07223 pDONR223 100% 92.5% 99.2% None (many diffs) n/a
8 ccsbBroad304_07223 pLX_304 0% 92.5% 99.2% V5 (many diffs) n/a
9 TRCN0000471318 CGGCGACCCACTCTTCACCGCCCG pLX_317 96.2% 92.5% 99.2% V5 (many diffs) n/a
10 ccsbBroadEn_06348 pDONR223 100% 92.5% 100% None (many diffs) n/a
11 ccsbBroad304_06348 pLX_304 0% 92.5% 100% V5 (many diffs) n/a
12 TRCN0000466554 GCTTTTTGTCTTCCCTACTCACGT pLX_317 98.5% 92.5% 100% V5 (many diffs) n/a
13 ccsbBroadEn_07224 pDONR223 100% 92.5% 99.2% None (many diffs) n/a
14 ccsbBroad304_07224 pLX_304 0% 92.5% 99.2% V5 (many diffs) n/a
15 TRCN0000472239 ATGAGCATATTTAAATGCTTTCTC pLX_317 100% 92.5% 99.2% V5 (many diffs) n/a
16 ccsbBroadEn_12031 pDONR223 100% 92.3% 97.6% None (many diffs) n/a
17 ccsbBroad304_12031 pLX_304 0% 92.3% 97.6% V5 (many diffs) n/a
18 TRCN0000469135 AACATACCTTGTTGTCATTTATTA pLX_317 100% 92.3% 97.6% V5 (many diffs) n/a
19 ccsbBroadEn_15861 pDONR223 0% 92% 98.4% None (many diffs) n/a
20 ccsbBroad304_15861 pLX_304 0% 92% 98.4% V5 (many diffs) n/a
21 TRCN0000466058 TATAACTAACAAACAAGCTAACTT pLX_317 98.5% 92% 98.4% V5 (many diffs) n/a
22 ccsbBroadEn_01903 pDONR223 100% 92% 99.2% None (many diffs) n/a
23 ccsbBroad304_01903 pLX_304 0% 92% 99.2% V5 (many diffs) n/a
24 TRCN0000474598 ACTACAGCTCACCGGCGTAGGAAC pLX_317 100% 92% 99.2% V5 (many diffs) n/a
25 ccsbBroadEn_05671 pDONR223 100% 91.7% 98.4% None (many diffs) n/a
26 ccsbBroad304_05671 pLX_304 0% 91.7% 98.4% V5 (many diffs) n/a
27 TRCN0000476574 TAAAAAAACATGTTATCTATAAGA pLX_317 92.5% 91.7% 98.4% V5 (many diffs) n/a
28 ccsbBroadEn_01902 pDONR223 100% 91.7% 98.4% None (many diffs) n/a
29 ccsbBroad304_01902 pLX_304 0% 91.7% 98.4% V5 (many diffs) n/a
30 TRCN0000473896 CTGGCTTAAGACAGAATAAACCCC pLX_317 100% 91.7% 98.4% V5 (many diffs) n/a
31 ccsbBroadEn_01900 pDONR223 100% 91.7% 100% None (many diffs) n/a
32 ccsbBroad304_01900 pLX_304 0% 91.7% 100% V5 (many diffs) n/a
33 TRCN0000470158 AGTTTACTCTTCCCTTTATTAGAT pLX_317 90.5% 91.7% 100% V5 (many diffs) n/a
34 ccsbBroadEn_01901 pDONR223 100% 91.5% 99.2% None (many diffs) n/a
35 ccsbBroad304_01901 pLX_304 0% 91.5% 99.2% V5 (many diffs) n/a
36 TRCN0000468700 CGACGATGACTCTCCCTCATTTGA pLX_317 100% 91.5% 99.2% V5 (many diffs) n/a
37 ccsbBroadEn_04839 pDONR223 100% 89.1% 95.2% None (many diffs) n/a
38 ccsbBroad304_04839 pLX_304 0% 89.1% 95.2% V5 (many diffs) n/a
39 TRCN0000466986 TCACGGGATGAGCTCCAAAAATGA pLX_317 100% 89.1% 95.2% V5 (many diffs) n/a
40 ccsbBroadEn_01899 pDONR223 100% 88.6% 96.8% None (many diffs) n/a
41 ccsbBroad304_01899 pLX_304 0% 88.6% 96.8% V5 (many diffs) n/a
42 TRCN0000477535 GAGTATGATTCTCGACACACTATA pLX_317 98.5% 88.6% 96.8% V5 (many diffs) n/a
43 ccsbBroadEn_01897 pDONR223 100% 88.3% 100% None (many diffs) n/a
44 ccsbBroad304_01897 pLX_304 0% 88.3% 100% V5 (many diffs) n/a
45 TRCN0000471861 TGCACGGGACGCACCAAATGACCA pLX_317 90.4% 88.3% 100% V5 (many diffs) n/a
46 ccsbBroadEn_11267 pDONR223 100% 71.4% 75.3% None (many diffs) n/a
47 ccsbBroad304_11267 pLX_304 0% 71.4% 75.3% V5 (many diffs) n/a
48 TRCN0000469107 ATTTGGTTCAGATACTGGTGTTTT pLX_317 18.5% 71.4% 75.3% V5 (many diffs) n/a
49 ccsbBroadEn_11322 pDONR223 100% 55.4% 59.5% None (many diffs) n/a
50 ccsbBroad304_11322 pLX_304 0% 55.4% 59.5% V5 (many diffs) n/a
51 TRCN0000471205 GAGTACAAGAAACTGCTGAAATGG pLX_317 100% 55.4% 59.5% V5 (many diffs) n/a
52 ccsbBroadEn_10354 pDONR223 100% 48.9% 51.5% None (many diffs) n/a
53 ccsbBroad304_10354 pLX_304 0% 48.9% 51.5% V5 (many diffs) n/a
54 TRCN0000466355 TTCTAACCCCTTTGTAGACCAATG pLX_317 100% 48.9% 51.5% V5 (many diffs) n/a
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