Transcript: Human XM_011543094.2

PREDICTED: Homo sapiens cyclin dependent kinase 7 (CDK7), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CDK7 (1022)
Length:
1075
CDS:
203..892

Additional Resources:

NCBI RefSeq record:
XM_011543094.2
NBCI Gene record:
CDK7 (1022)

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 BRDN0001147450 AGCTCCAAATAGTAACTCGG pXPR_003 GGG 193 28% 5 0.6238 CDK7 CDK7 76080
2 BRDN0001162216 TTAAAAACCTTACCCTATGT pXPR_003 AGG 53 8% 3 -0.0842 CDK7 CDK7 76077
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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 XM_011543094.2, 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 TRCN0000219663 CAACCAAATTGTCGCCATTAA pLKO.1 124 5UTR 100% 13.200 18.480 N CDK7 n/a
2 TRCN0000230908 CAACCAAATTGTCGCCATTAA pLKO_005 124 5UTR 100% 13.200 18.480 N CDK7 n/a
3 TRCN0000218391 TAATCCATGTGCTCGAATTAC pLKO_005 685 CDS 100% 13.200 18.480 N CDK7 n/a
4 TRCN0000219664 TAATCCATGTGCTCGAATTAC pLKO.1 685 CDS 100% 13.200 18.480 N CDK7 n/a
5 TRCN0000000593 GCAGGAGACGACTTACTAGAT pLKO.1 641 CDS 100% 4.950 6.930 N CDK7 n/a
6 TRCN0000000595 GTGGGCTGTTGGCTGTATATT pLKO.1 439 CDS 100% 15.000 10.500 N CDK7 n/a
7 TRCN0000218042 AGAGAACACTGGACAACATTT pLKO_005 893 CDS 100% 13.200 9.240 N CDK7 n/a
8 TRCN0000000592 GCTGTAGAAGTGAGTTTGTAA pLKO.1 975 3UTR 100% 5.625 3.938 N CDK7 n/a
9 TRCN0000197042 GCCTACATGTTGATGACTCTT pLKO.1 197 5UTR 100% 4.950 3.465 N CDK7 n/a
10 TRCN0000000596 CATTTAAGAGTTTCCCTGGAA pLKO.1 594 CDS 100% 2.640 1.848 N CDK7 n/a
11 TRCN0000196691 GTAAATGCTGTAGAAGTGAGT pLKO.1 969 3UTR 100% 2.640 1.848 N CDK7 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 XM_011543094.2, 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 ccsbBroadEn_00280 pDONR223 100% 66.1% 66.1% None 0_1ins351 n/a
2 ccsbBroad304_00280 pLX_304 0% 66.1% 66.1% V5 0_1ins351 n/a
3 TRCN0000470052 TGCGACTAGACTGATGGCACGATT pLX_317 46.6% 66.1% 66.1% V5 0_1ins351 n/a
4 ccsbBroadEn_14577 pDONR223 0% 66.1% 66.1% None 0_1ins351 n/a
5 ccsbBroad304_14577 pLX_304 0% 66.1% 66.1% V5 0_1ins351 n/a
6 TRCN0000481302 CGGTCTGAGCGTTCTGAGTTTCTA pLX_317 39.7% 66.1% 66.1% V5 0_1ins351 n/a
7 TRCN0000488377 TACTCTATAAACCTTGCAATCCGC pLX_317 26.5% 66.1% 66.1% V5 (not translated due to prior stop codon) 0_1ins351 n/a
8 ccsbBroadEn_15380 pDONR223 0% 66% 65.8% None 0_1ins351;38A>G n/a
9 ccsbBroad304_15380 pLX_304 0% 66% 65.8% V5 0_1ins351;38A>G n/a
10 TRCN0000475074 AGAAGCTGTACGCAAACCTCGGCC pLX_317 53.1% 66% 65.8% V5 0_1ins351;38A>G n/a
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