Transcript: Human XR_002958172.1

PREDICTED: Homo sapiens cyclin dependent kinase 11B (CDK11B), transcript variant X15, misc_RNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CDK11B (984)
Length:
2271
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_002958172.1
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 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 Human XR_002958172.1, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000380353 AGAGGAGAAAGCAGAGATAAA pLKO_005 797 3UTR 100% 13.200 6.600 Y CDK11A n/a
2 TRCN0000380296 AGATGAAATTGTGGCTCTAAA pLKO_005 2010 3UTR 100% 13.200 6.600 Y CDK11A n/a
3 TRCN0000196946 GCAGAAGCCAGCACAGTTAAA pLKO.1 1523 3UTR 100% 13.200 6.600 Y CDK11B n/a
4 TRCN0000379886 ACTACAGCGACAAAGTGAAAG pLKO_005 1408 3UTR 100% 10.800 5.400 Y CDK11A n/a
5 TRCN0000356004 ATGATTCTTTGGCCATCAAAC pLKO_005 958 3UTR 100% 10.800 5.400 Y CDK11B n/a
6 TRCN0000356003 CCGCTTGGAGCAGTTAGAAAG pLKO_005 1244 3UTR 100% 10.800 5.400 Y CDK11B n/a
7 TRCN0000314695 GAGAGGACTACAGCGACAAAG pLKO_005 1402 3UTR 100% 10.800 5.400 Y CDK11B n/a
8 TRCN0000196704 GATGAAATTGTGGCTCTAAAG pLKO.1 2011 3UTR 100% 10.800 5.400 Y CDK11B n/a
9 TRCN0000380294 GCCTGATGGAGACCATGAAAC pLKO_005 2204 3UTR 100% 10.800 5.400 Y CDK11A n/a
10 TRCN0000379745 GGAAGCATGCTAGAGTGAAAG pLKO_005 1075 3UTR 100% 10.800 5.400 Y CDK11A n/a
11 TRCN0000355952 TCTACATCGTGATGAACTATG pLKO_005 2165 3UTR 100% 10.800 5.400 Y CDK11B n/a
12 TRCN0000196539 GATGATTCTTTGGCCATCAAA pLKO.1 957 3UTR 100% 5.625 2.813 Y CDK11B n/a
13 TRCN0000006994 CAAGAGGAGAAAGCAGAGATA pLKO.1 795 3UTR 100% 4.950 2.475 Y CDK11A n/a
14 TRCN0000006210 CAGATGAAATTGTGGCTCTAA pLKO.1 2009 3UTR 100% 4.950 2.475 Y CDK11B n/a
15 TRCN0000197027 GCAGCAACATGGACAAGATCT pLKO.1 2147 3UTR 100% 4.950 2.475 Y CDK11A n/a
16 TRCN0000380388 GTGAAGATGAAGAACGAGAAA pLKO_005 1819 3UTR 100% 4.950 2.475 Y CDK11A n/a
17 TRCN0000006206 GCCGAAGAAGTAAGTGAGGAA pLKO.1 1791 3UTR 100% 2.640 1.320 Y CDK11B n/a
18 TRCN0000006992 CGTATAGAAGAGAAGACTCAA pLKO.1 916 3UTR 100% 4.950 2.475 Y CDK11A n/a
19 TRCN0000413041 AGGAAGAAGAGGAGGAGGAAG pLKO_005 1657 3UTR 100% 4.050 2.025 Y Myt1 n/a
20 TRCN0000087583 AGGAGGAAGAGGAAGAGGAAA pLKO.1 1726 3UTR 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 XR_002958172.1, 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 ccsbBroadEn_14570 pDONR223 69.3% 47.1% None (many diffs) n/a
2 ccsbBroad304_14570 pLX_304 0% 47.1% V5 (not translated due to prior stop codon) (many diffs) n/a
3 ccsbBroadEn_14571 pDONR223 100% 30.6% None (many diffs) n/a
4 ccsbBroad304_14571 pLX_304 0% 30.6% V5 (not translated due to prior stop codon) (many diffs) n/a
5 TRCN0000467626 TAGTGACAATCAACTTACAGCGAA pLX_317 38.1% 30.3% V5 (not translated due to prior stop codon) (many diffs) n/a
6 ccsbBroadEn_13742 pDONR223 100% 14.7% None (many diffs) n/a
7 ccsbBroad304_13742 pLX_304 0% 14.7% V5 (many diffs) n/a
8 TRCN0000475614 GCGTCAAACGAAAACCATTCTATA pLX_317 10.6% 14.7% V5 (many diffs) n/a
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