Transcript: Human NM_004936.4

Homo sapiens cyclin dependent kinase inhibitor 2B (CDKN2B), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-09-03
Taxon:
Homo sapiens (human)
Gene:
CDKN2B (1030)
Length:
3853
CDS:
353..769

Additional Resources:

NCBI RefSeq record:
NM_004936.4
NBCI Gene record:
CDKN2B (1030)

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_004936.4, 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 TRCN0000262328 CACTTAAGCACTCAATCATTA pLKO_005 3101 3UTR 100% 13.200 18.480 N CDKN2B n/a
2 TRCN0000262325 CCCTTAATTTGACCTCTATAT pLKO_005 3234 3UTR 100% 13.200 18.480 N CDKN2B n/a
3 TRCN0000262330 CTCGTGGGATGTCCTACTATC pLKO_005 2055 3UTR 100% 10.800 15.120 N CDKN2B n/a
4 TRCN0000038155 ACGGAGTCAACCGTTTCGGGA pLKO.1 474 CDS 100% 0.220 0.308 N CDKN2B n/a
5 TRCN0000038158 CCCAACGGAGTCAACCGTTTC pLKO.1 470 CDS 100% 0.200 0.280 N CDKN2B n/a
6 TRCN0000038156 ACTAGTGGAGAAGGTGCGACA pLKO.1 427 CDS 100% 0.000 0.000 N CDKN2B n/a
7 TRCN0000038157 GCGCGGATCCCAACGGAGTCA pLKO.1 462 CDS 100% 0.000 0.000 N CDKN2B n/a
8 TRCN0000282191 AGCGGATTTCCAGGGATATTT pLKO_005 998 3UTR 100% 15.000 12.000 N CDKN2B n/a
9 TRCN0000262329 CCTAATGACAACCTGATATTA pLKO_005 3376 3UTR 100% 15.000 12.000 N CDKN2B n/a
10 TRCN0000262323 TCCAGGGTTGCTTGATCATTA pLKO_005 2115 3UTR 100% 13.200 10.560 N CDKN2B n/a
11 TRCN0000262324 ACTCCAAGAGGTGGGTAATTT pLKO_005 2191 3UTR 100% 15.000 10.500 N CDKN2B n/a
12 TRCN0000282190 TGGATCCCACAGTACTATATT pLKO_005 3422 3UTR 100% 15.000 10.500 N CDKN2B n/a
13 TRCN0000262327 TTCATCAGCAGCCTAATATAT pLKO_005 3606 3UTR 100% 15.000 10.500 N CDKN2B n/a
14 TRCN0000262326 TATGCTTCTAAATGCTCATTC pLKO_005 2384 3UTR 100% 10.800 7.560 N CDKN2B n/a
15 TRCN0000166364 CACACACACACACACACACAA pLKO.1 1614 3UTR 100% 4.950 2.475 Y KAAG1 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_004936.4, 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_10727 pDONR223 100% 49.7% 50.6% None (many diffs) n/a
2 ccsbBroad304_10727 pLX_304 0% 49.7% 50.6% V5 (many diffs) n/a
3 TRCN0000472814 GGACATTGCTGCCATTCTGAACGC pLX_317 87.1% 49.7% 50.6% V5 (many diffs) n/a
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