Transcript: Human NM_033489.3

Homo sapiens cyclin dependent kinase 11B (CDK11B), transcript variant 5, mRNA.

Source:
NCBI, updated 2019-09-29
Taxon:
Homo sapiens (human)
Gene:
CDK11B (984)
Length:
3039
CDS:
254..2500

Additional Resources:

NCBI RefSeq record:
NM_033489.3
NBCI Gene record:
CDK11B (984)

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.

Clone ID Target Seq Vector PAM Seq Cut Position Cut % of CDS Length Exon On Target Score[?] Other Matching Genes Orig. Target Gene[?] Notes Addgene[?]
1 BRDN0001146011 AAAAGAGAAAAGAGAAACGT pXPR_003 AGG 222 10% 5 0.7131 CDK11B CDK11B 77065
2 BRDN0001146017 CTACATCGTGATGAACTATG pXPR_003 TGG 1411 63% 15 0.2877 CDK11B CDK11B 77066
3 BRDN0001146757 ACATCACCGAACGATGAGAG pXPR_003 AGG 553 25% 8 -0.1469 CDK11A, CDK11B CDK11B 77064
4 BRDN0001146432 TCCTTATTGTGATCTCCATG pXPR_003 CGG 71 3% 4 -0.2515 CDK11B CDK11B 77063
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shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human NM_033489.3, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000197007 GCAGTCAAGAAGATGACCTTC pLKO.1 2120 CDS 100% 4.050 2.835 N CDK11B n/a
2 TRCN0000196705 GAAGTCAGAAATCGATCAGAT pLKO.1 2032 CDS 100% 4.950 2.970 N CDK11B n/a
3 TRCN0000006207 CGATCAGATCAACAAGGTGTT pLKO.1 2044 CDS 100% 4.050 2.430 N CDK11B n/a
4 TRCN0000314694 CGATCAGATCAACAAGGTGTT pLKO_005 2044 CDS 100% 4.050 2.430 N CDK11B n/a
5 TRCN0000314617 ACGGCCTCAAGCATGAGTATT pLKO_005 2259 CDS 100% 13.200 6.600 Y CDK11B n/a
6 TRCN0000380353 AGAGGAGAAAGCAGAGATAAA pLKO_005 182 5UTR 100% 13.200 6.600 Y CDK11A n/a
7 TRCN0000380296 AGATGAAATTGTGGCTCTAAA pLKO_005 1492 CDS 100% 13.200 6.600 Y CDK11A n/a
8 TRCN0000006209 CGGCCTCAAGCATGAGTATTT pLKO.1 2260 CDS 100% 13.200 6.600 Y CDK11B n/a
9 TRCN0000380853 GGCCTCAAGCATGAGTATTTC pLKO_005 2261 CDS 100% 13.200 6.600 Y CDK11A n/a
10 TRCN0000379886 ACTACAGCGACAAAGTGAAAG pLKO_005 813 CDS 100% 10.800 5.400 Y CDK11A n/a
11 TRCN0000356004 ATGATTCTTTGGCCATCAAAC pLKO_005 390 CDS 100% 10.800 5.400 Y CDK11B n/a
12 TRCN0000356003 CCGCTTGGAGCAGTTAGAAAG pLKO_005 649 CDS 100% 10.800 5.400 Y CDK11B n/a
13 TRCN0000314695 GAGAGGACTACAGCGACAAAG pLKO_005 807 CDS 100% 10.800 5.400 Y CDK11B n/a
14 TRCN0000196704 GATGAAATTGTGGCTCTAAAG pLKO.1 1493 CDS 100% 10.800 5.400 Y CDK11B n/a
15 TRCN0000380294 GCCTGATGGAGACCATGAAAC pLKO_005 1686 CDS 100% 10.800 5.400 Y CDK11A n/a
16 TRCN0000380611 GCTGCTTGGTGCCAAGGAATA pLKO_005 1936 CDS 100% 10.800 5.400 Y CDK11A n/a
17 TRCN0000379745 GGAAGCATGCTAGAGTGAAAG pLKO_005 507 CDS 100% 10.800 5.400 Y CDK11A n/a
18 TRCN0000355952 TCTACATCGTGATGAACTATG pLKO_005 1647 CDS 100% 10.800 5.400 Y CDK11B n/a
19 TRCN0000196539 GATGATTCTTTGGCCATCAAA pLKO.1 389 CDS 100% 5.625 2.813 Y CDK11B n/a
20 TRCN0000006994 CAAGAGGAGAAAGCAGAGATA pLKO.1 180 5UTR 100% 4.950 2.475 Y CDK11A n/a
21 TRCN0000006210 CAGATGAAATTGTGGCTCTAA pLKO.1 1491 CDS 100% 4.950 2.475 Y CDK11B n/a
22 TRCN0000197027 GCAGCAACATGGACAAGATCT pLKO.1 1629 CDS 100% 4.950 2.475 Y CDK11A n/a
23 TRCN0000380388 GTGAAGATGAAGAACGAGAAA pLKO_005 1185 CDS 100% 4.950 2.475 Y CDK11A n/a
24 TRCN0000006206 GCCGAAGAAGTAAGTGAGGAA pLKO.1 1157 CDS 100% 2.640 1.320 Y CDK11B n/a
25 TRCN0000006992 CGTATAGAAGAGAAGACTCAA pLKO.1 348 CDS 100% 4.950 2.475 Y CDK11A n/a
26 TRCN0000413041 AGGAAGAAGAGGAGGAGGAAG pLKO_005 1023 CDS 100% 4.050 2.025 Y Myt1 n/a
27 TRCN0000087583 AGGAGGAAGAGGAAGAGGAAA pLKO.1 1092 CDS 100% 4.950 2.475 Y Adam32 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_033489.3, 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_14570 pDONR223 69.3% 94.4% 61.3% None (many diffs) n/a
2 ccsbBroad304_14570 pLX_304 0% 94.4% 61.3% V5 (not translated due to prior stop codon) (many diffs) n/a
3 ccsbBroadEn_13742 pDONR223 100% 52.4% 49.2% None (many diffs) n/a
4 ccsbBroad304_13742 pLX_304 0% 52.4% 49.2% V5 (many diffs) n/a
5 TRCN0000475614 GCGTCAAACGAAAACCATTCTATA pLX_317 10.6% 52.4% 49.2% V5 (many diffs) n/a
6 TRCN0000467626 TAGTGACAATCAACTTACAGCGAA pLX_317 38.1% 33.1% .5% V5 (not translated due to prior stop codon) (many diffs) n/a
7 ccsbBroadEn_14571 pDONR223 100% 33.1% .5% None (many diffs) n/a
8 ccsbBroad304_14571 pLX_304 0% 33.1% .5% V5 (not translated due to prior stop codon) (many diffs) n/a
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