Transcript: Human NM_002117.6

Homo sapiens major histocompatibility complex, class I, C (HLA-C), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-09-29
Taxon:
Homo sapiens (human)
Gene:
HLA-C (3107)
Length:
1542
CDS:
22..1122

Additional Resources:

NCBI RefSeq record:
NM_002117.6
NBCI Gene record:
HLA-C (3107)

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 Human NM_002117.6, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000353149 ACCGGGAGACACAGAAGTACA pLKO_005 275 CDS 100% 4.950 6.930 N HLA-C n/a
2 TRCN0000353148 AGCTGTGGTCACCGCTATGAT pLKO_005 996 CDS 100% 5.625 3.938 N HLA-C n/a
3 TRCN0000370152 ATCACTTGTAAAGCCTGAGAC pLKO_005 1105 CDS 100% 4.050 2.835 N HLA-C n/a
4 TRCN0000377502 TGGTTGTCCTAGCTGTCCTTG pLKO_005 974 CDS 100% 4.050 2.835 N HLA-C n/a
5 TRCN0000057316 CGCTATGATGTGTAGGAGGAA pLKO.1 1008 CDS 100% 2.640 1.848 N HLA-C n/a
6 TRCN0000057314 GAGTCTCTCATCACTTGTAAA pLKO.1 1096 CDS 100% 13.200 7.920 N HLA-C n/a
7 TRCN0000344916 TGAGTCTCTCATCACTTGTAA pLKO_005 1095 CDS 100% 5.625 3.375 N HLA-C n/a
8 TRCN0000057313 GCAACTTCTTACTTCCCTAAT pLKO.1 1397 3UTR 100% 10.800 5.400 Y HLA-C n/a
9 TRCN0000333639 GCAACTTCTTACTTCCCTAAT pLKO_005 1397 3UTR 100% 10.800 5.400 Y HLA-C n/a
10 TRCN0000057315 GCAGAGATACACGTGCCATAT pLKO.1 855 CDS 100% 10.800 5.400 Y HLA-C n/a
11 TRCN0000363747 GCAGAGATACACGTGCCATAT pLKO_005 855 CDS 100% 10.800 5.400 Y HLA-C n/a
12 TRCN0000057317 CAAGGATTACATCGCCCTGAA pLKO.1 453 CDS 100% 4.050 2.025 Y HLA-C n/a
13 TRCN0000057338 CTTTCTGCAAAGGCACCTGAA pLKO.1 1200 3UTR 100% 4.050 2.025 Y HLA-B n/a
14 TRCN0000057341 CCACTCCATGAGGTATTTCTA pLKO.1 99 CDS 100% 5.625 2.813 Y HLA-B n/a
15 TRCN0000057241 CCACTCCATGAGGTATTTCTT pLKO.1 99 CDS 100% 5.625 2.813 Y HLA-A n/a
16 TRCN0000299015 CCACTCCATGAGGTATTTCTT pLKO_005 99 CDS 100% 5.625 2.813 Y HLA-A 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_002117.6, 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_15444 pDONR223 0% 99.1% 99.1% None 1_9delATGCGGGTC n/a
2 ccsbBroad304_15444 pLX_304 0% 99.1% 99.1% V5 1_9delATGCGGGTC n/a
3 TRCN0000466157 AACATCTTCCGGACGCACAACCGT pLX_317 33.7% 99.1% 99.1% V5 1_9delATGCGGGTC n/a
4 ccsbBroadEn_10876 pDONR223 100% 96.6% 93.1% None (many diffs) n/a
5 ccsbBroad304_10876 pLX_304 0% 96.6% 93.1% V5 (many diffs) n/a
6 TRCN0000480126 GGTTTAAAAAATATATTGATCTAG pLX_317 37.2% 96.6% 93.1% V5 (many diffs) n/a
7 ccsbBroadEn_10875 pDONR223 100% 93.9% 89.5% None (many diffs) n/a
8 ccsbBroad304_10875 pLX_304 0% 93.9% 89.5% V5 (many diffs) n/a
9 TRCN0000469854 ACACCGAACACAATGTCGCAAGTA pLX_317 39.8% 93.9% 89.5% V5 (many diffs) n/a
10 ccsbBroadEn_10874 pDONR223 100% 91.6% 85.5% None (many diffs) n/a
11 ccsbBroad304_10874 pLX_304 0% 91.6% 85.5% V5 (many diffs) n/a
12 TRCN0000466537 CCTTGTCTCTTTAGTTCCGGAATC pLX_317 24.9% 91.6% 85.5% V5 (many diffs) n/a
13 ccsbBroadEn_10873 pDONR223 100% 88.3% 80.6% None (many diffs) n/a
14 ccsbBroad304_10873 pLX_304 0% 88.3% 80.6% V5 (many diffs) n/a
15 TRCN0000467519 TAGATAGCAAGTTGAAAACATAGT pLX_317 37.4% 88.3% 80.6% V5 (many diffs) n/a
16 ccsbBroadEn_15443 pDONR223 0% 88.1% 80% None (many diffs) n/a
17 ccsbBroad304_15443 pLX_304 0% 88.1% 80% V5 (many diffs) n/a
18 TRCN0000474782 GACCCAGCCTCAGCGGGTCATATA pLX_317 48.2% 88.1% 80% V5 (many diffs) n/a
19 ccsbBroad304_13869 pLX_304 38.8% 88.1% 79.5% V5 (many diffs) n/a
20 TRCN0000478257 GCGAGGCAGAGTCGTTTTGCCCGA pLX_317 25.5% 88.1% 79.5% V5 (many diffs) n/a
21 ccsbBroadEn_13869 pDONR223 100% 87.9% 78.6% None (many diffs) n/a
22 ccsbBroadEn_06376 pDONR223 100% 83.3% 73.7% None (many diffs) n/a
23 ccsbBroad304_06376 pLX_304 0% 83.3% 73.7% V5 (many diffs) n/a
24 TRCN0000467116 AGGAAAGTCCTCACAACCTTAAGA pLX_317 32.9% 83.3% 73.7% V5 (many diffs) n/a
25 ccsbBroadEn_06378 pDONR223 100% 81.7% 74% None (many diffs) n/a
26 ccsbBroad304_06378 pLX_304 0% 81.7% 74% V5 (many diffs) n/a
27 TRCN0000469084 CCGCATGATACGGACCGACTTCAA pLX_317 36.9% 81.7% 74% V5 (many diffs) n/a
28 ccsbBroadEn_06379 pDONR223 100% 81.2% 73.2% None (many diffs) n/a
29 ccsbBroad304_06379 pLX_304 0% 81.2% 73.2% V5 (many diffs) n/a
30 TRCN0000465566 TATGGTTATTATAGCAGACTCGAC pLX_317 34% 81.2% 73.2% V5 (many diffs) n/a
31 ccsbBroadEn_06377 pDONR223 100% 68.6% 61.1% None (many diffs) n/a
32 ccsbBroad304_06377 pLX_304 0% 68.6% 61.1% V5 (many diffs) n/a
33 TRCN0000468057 TTATGCCGCCCGGCTCAGACGATT pLX_317 25.1% 68.6% 61.1% V5 (many diffs) n/a
34 ccsbBroadEn_10885 pDONR223 100% 27.9% 22.3% None (many diffs) n/a
35 ccsbBroad304_10885 pLX_304 0% 27.9% 22.3% V5 (many diffs) n/a
36 TRCN0000480644 ACTGTGAATCATTCCCGCTCGGTA pLX_317 62.4% 27.9% 22.3% V5 (many diffs) n/a
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