Transcript: Human NM_001009565.2

Homo sapiens cyclin dependent kinase like 4 (CDKL4), transcript variant 2, mRNA.

Source:
NCBI, updated 2019-05-01
Taxon:
Homo sapiens (human)
Gene:
CDKL4 (344387)
Length:
1623
CDS:
57..1004

Additional Resources:

NCBI RefSeq record:
NM_001009565.2
NBCI Gene record:
CDKL4 (344387)

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 BRDN0001149006 CCGATTATGTAGCTACGAGA pXPR_003 TGG 489 52% 5 0.6774 CDKL4 CDKL4 76107
2 BRDN0001146173 AAATCTTGTGAACCTCATCG pXPR_003 AGG 199 21% 2 0.6364 CDKL4 CDKL4 76106
3 BRDN0001147188 GTGGCCTGGAAAATCAGATG pXPR_003 TGG 616 65% 5 0.5353 CDKL4 CDKL4 76109
4 BRDN0001149476 AATATTCTAATAACTAAGCA pXPR_003 AGG 407 43% 4 -0.2820 CDKL4 CDKL4 76108
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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_001009565.2, 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 TRCN0000358265 ATGGTTCTTCAGTCGATATAT pLKO_005 589 CDS 100% 15.000 21.000 N CDKL4 n/a
2 TRCN0000194819 CAAGATCGTATACCCATAATA pLKO.1 1254 3UTR 100% 15.000 21.000 N CDKL4 n/a
3 TRCN0000358264 ACAAGATCGTATACCCATAAT pLKO_005 1253 3UTR 100% 13.200 18.480 N CDKL4 n/a
4 TRCN0000021521 CCGATTATGTAGCTACGAGAT pLKO.1 529 CDS 100% 4.050 5.670 N CDKL4 n/a
5 TRCN0000021523 GTATGGTTCTTCAGTCGATAT pLKO.1 587 CDS 100% 10.800 8.640 N CDKL4 n/a
6 TRCN0000358262 ACGTATGTTGAAGCAATTAAA pLKO_005 212 CDS 100% 15.000 10.500 N CDKL4 n/a
7 TRCN0000358263 GAGATGCCTACACCGATTATG pLKO_005 517 CDS 100% 13.200 9.240 N CDKL4 n/a
8 TRCN0000021520 CCAAGACATCAATCAATCTTT pLKO.1 720 CDS 100% 5.625 3.938 N CDKL4 n/a
9 TRCN0000021522 CTGAAGATGATCCTGTTGTTA pLKO.1 169 CDS 100% 5.625 3.938 N CDKL4 n/a
10 TRCN0000196305 GAGCTCCTACTTTGATTCTTT pLKO.1 902 CDS 100% 5.625 3.938 N CDKL4 n/a
11 TRCN0000195080 CCAAATCTTGTGAACCTCATC pLKO.1 237 CDS 100% 4.050 2.835 N CDKL4 n/a
12 TRCN0000021519 GCTATAAAAATAATTCCTTTT pLKO.1 1008 3UTR 100% 0.000 0.000 N CDKL4 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_001009565.2, 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 TRCN0000467405 GCGTACAAATGTAGATCTTTTTCC pLX_317 30.2% 99.3% 21.2% V5 (not translated due to prior stop codon) (many diffs) n/a
2 ccsbBroadEn_15308 pDONR223 100% 99% 21.2% None (many diffs) n/a
3 ccsbBroad304_15308 pLX_304 0% 99% 21.2% V5 (not translated due to prior stop codon) (many diffs) n/a
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