Transcript: Human XM_011529474.2

PREDICTED: Homo sapiens salt inducible kinase 1 (SIK1), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
SIK1 (150094)
Length:
4588
CDS:
132..2336

Additional Resources:

NCBI RefSeq record:
XM_011529474.2
NBCI Gene record:
SIK1 (150094)

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 BRDN0001145248 ATGGTCGTGACAGTACTCCA pXPR_003 CGG 412 19% 5 1.7988 LOC102724428, SIK1 SIK1 77895
2 BRDN0001146021 CCGGGGACACTTACATGGCG pXPR_003 CGG 1312 60% 10 -0.0625 LOC102724428, SIK1 SIK1 77894
3 BRDN0001487095 CCCCTCAAAGACTTCCGGGG pXPR_003 CGG 574 26% 6 -0.0642 LOC102724428, SIK1 SIK1 77893
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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_011529474.2, 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 TRCN0000199588 GCGCGTGCATTGATTACTATC pLKO.1 2739 3UTR 100% 10.800 6.480 N SIK1 n/a
2 TRCN0000314588 GCGCGTGCATTGATTACTATC pLKO_005 2739 3UTR 100% 10.800 6.480 N SIK1 n/a
3 TRCN0000314530 ACGATTAGATTCAAGCAATTT pLKO_005 314 CDS 100% 13.200 6.600 Y SIK1 n/a
4 TRCN0000199737 GCCAAAGATTGACCCAGTTAC pLKO.1 3803 3UTR 100% 10.800 5.400 Y SIK1 n/a
5 TRCN0000314529 GCCAAAGATTGACCCAGTTAC pLKO_005 3803 3UTR 100% 10.800 5.400 Y SIK1 n/a
6 TRCN0000199689 GCGGAAGAAGTTCTGGCAAAT pLKO.1 509 CDS 100% 10.800 5.400 Y SIK1 n/a
7 TRCN0000001362 GAGAAATGTATGCCAAATGAT pLKO.1 4487 3UTR 100% 5.625 2.813 Y SIK1 n/a
8 TRCN0000199428 GATGGCAACATGGACATCAAG pLKO.1 603 CDS 100% 4.950 2.475 Y SIK1 n/a
9 TRCN0000199404 CTGACAGTTGTCTGACCTTCT pLKO.1 1498 CDS 100% 4.050 2.025 Y SIK1 n/a
10 TRCN0000314528 CTGACAGTTGTCTGACCTTCT pLKO_005 1498 CDS 100% 4.050 2.025 Y SIK1 n/a
11 TRCN0000199637 GTTCAGCTGATGAAGCTTCTG pLKO.1 354 CDS 100% 4.050 2.025 Y SIK1 n/a
12 TRCN0000350456 GTTCAGCTGATGAAGCTTCTG pLKO_005 354 CDS 100% 4.050 2.025 Y SIK1 n/a
13 TRCN0000001365 CATCCACACATCATAAAGCTT pLKO.1 378 CDS 100% 3.000 1.500 Y SIK1 n/a
14 TRCN0000001363 CCATCCACACATCATAAAGCT pLKO.1 377 CDS 100% 3.000 1.500 Y SIK1 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_011529474.2, 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_09665 pDONR223 100% 93.6% 93.6% None 967_968ins147;1697C>T;1701C>T n/a
2 ccsbBroad304_09665 pLX_304 0% 93.6% 93.6% V5 967_968ins147;1697C>T;1701C>T n/a
3 TRCN0000468228 GCAGAGATGTTATTCGGAGACCGA pLX_317 19.8% 93.6% 93.6% V5 967_968ins147;1697C>T;1701C>T n/a
4 ccsbBroadEn_15264 pDONR223 0% 93.6% 93.6% None 967_968ins147;1697C>T;1701C>T n/a
5 ccsbBroad304_15264 pLX_304 0% 93.6% 93.6% V5 967_968ins147;1697C>T;1701C>T n/a
6 TRCN0000470980 AGCTCCACAGTAGAAGGAGTGCCT pLX_317 19% 93.6% 93.6% V5 967_968ins147;1697C>T;1701C>T n/a
7 TRCN0000488093 GGAAGTAAAGTCCGGTTTGGTTTA pLX_317 14% 93.6% 93.6% V5 (not translated due to prior stop codon) 967_968ins147;1697C>T;1701C>T n/a
8 TRCN0000489745 CCAAATAGGTATCCTGCGTGACTT pLX_317 17.3% 93.6% 93.4% V5 (many diffs) n/a
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