Transcript: Human NM_001367064.1

Homo sapiens cyclin dependent kinase like 1 (CDKL1), transcript variant 3, mRNA.

Source:
NCBI, updated 2019-09-16
Taxon:
Homo sapiens (human)
Gene:
CDKL1 (8814)
Length:
5254
CDS:
540..1445

Additional Resources:

NCBI RefSeq record:
NM_001367064.1
NBCI Gene record:
CDKL1 (8814)

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 BRDN0001148261 GGTCACAATATTCAAACACC pXPR_003 AGG 236 26% 3 0.5969 CDKL1 CDKL1 76270
2 BRDN0001147644 ATTGCCCAAACATCCACCGG pXPR_003 GGG 546 60% 6 0.3035 CDKL1 CDKL1 76269
3 BRDN0001148269 TGACTACTATACAGACTACG pXPR_003 TGG 481 53% 6 0.2315 CDKL1 CDKL1 76268
4 BRDN0001148660 TCGGGAAATCCGAATGCTCA pXPR_003 AGG 163 18% 2 0.0353 CDKL1 CDKL1 76267
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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_001367064.1, 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 TRCN0000006071 CACGAAACATTCCGTGATTAA pLKO.1 944 CDS 100% 13.200 18.480 N CDKL1 n/a
2 TRCN0000356032 CTGGACCGAGTGACTACTATA pLKO_005 997 CDS 100% 13.200 18.480 N CDKL1 n/a
3 TRCN0000006073 CCGGTGGATGTTTGGGCAATT pLKO.1 1086 CDS 100% 10.800 15.120 N CDKL1 n/a
4 TRCN0000355982 ACGAAACATTCCGTGATTAAG pLKO_005 945 CDS 100% 13.200 9.240 N CDKL1 n/a
5 TRCN0000197130 GTCAGATTGTGGCCATCAAGA pLKO.1 622 CDS 100% 4.950 3.465 N CDKL1 n/a
6 TRCN0000006072 CCTGAAGATATGGAACCACTT pLKO.1 1269 CDS 100% 4.050 2.835 N CDKL1 n/a
7 TRCN0000006069 CCAGCAAGTGTTTAGCACGAA pLKO.1 1217 CDS 100% 2.640 1.848 N CDKL1 n/a
8 TRCN0000006070 GCCATCAAGAAGTTTCTGGAA pLKO.1 633 CDS 100% 2.640 1.848 N CDKL1 n/a
9 TRCN0000164834 CAAACTCCTGAGCTCAAGCAA pLKO.1 4545 3UTR 100% 3.000 1.500 Y LINC00336 n/a
10 TRCN0000155836 CCCAAAGTGCTGGGATTACAA pLKO.1 466 5UTR 100% 5.625 2.813 Y KLHL30 n/a
11 TRCN0000141025 CCCAAAGTGCTGGGATTACTT pLKO.1 466 5UTR 100% 5.625 2.813 Y EID2B 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_001367064.1, 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 TRCN0000470267 AATACCCGCGTAGATCGAACGGGA pLX_317 41.7% 99.2% 98% V5 (many diffs) n/a
2 ccsbBroadEn_14914 pDONR223 100% 99.1% 97.6% None (many diffs) n/a
3 ccsbBroad304_14914 pLX_304 0% 99.1% 97.6% V5 (many diffs) n/a
4 ccsbBroadEn_02021 pDONR223 100% 84% 84% None 795_796ins171 n/a
5 ccsbBroad304_02021 pLX_304 0% 84% 84% V5 795_796ins171 n/a
6 TRCN0000477527 TGTAACCGATCCCACACATCGTGG pLX_317 34.4% 84% 84% V5 795_796ins171 n/a
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