Transcript: Human XM_017008179.1

PREDICTED: Homo sapiens KIT proto-oncogene, receptor tyrosine kinase (KIT), transcript variant X5, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
KIT (3815)
Length:
5135
CDS:
59..2977

Additional Resources:

NCBI RefSeq record:
XM_017008179.1
NBCI Gene record:
KIT (3815)

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.

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 XM_017008179.1, 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 TRCN0000363125 ACTTCATCTAACGAGATTAAA pLKO_005 1189 CDS 100% 15.000 21.000 N KIT n/a
2 TRCN0000000389 GCGACGAGATTAGGCTGTTAT pLKO.1 210 CDS 100% 13.200 18.480 N KIT n/a
3 TRCN0000284340 ACGAGTTGGCCCTAGACTTAG pLKO_005 2325 CDS 100% 10.800 15.120 N KIT n/a
4 TRCN0000000390 GCACCAACAAACACGGCTTAA pLKO.1 348 CDS 100% 10.800 15.120 N KIT n/a
5 TRCN0000000388 CCATAAGGTTTCGTTTCTGTA pLKO.1 3696 3UTR 100% 4.950 6.930 N KIT n/a
6 TRCN0000000391 GCCGGTCGATTCTAAGTTCTA pLKO.1 2665 CDS 100% 4.950 6.930 N KIT n/a
7 TRCN0000000392 GCACGGTTGAATGTAAGGCTT pLKO.1 1521 CDS 100% 2.640 2.112 N KIT n/a
8 TRCN0000271279 AGTAGATTAAGAGCCATATAA pLKO_005 3750 3UTR 100% 15.000 10.500 N KIT n/a
9 TRCN0000194707 CAACTGCTTATGGCTTAATTA pLKO.1 1866 CDS 100% 15.000 10.500 N KIT n/a
10 TRCN0000195108 CCCTGGTCATTACAGAATATT pLKO.1 2046 CDS 100% 15.000 10.500 N KIT n/a
11 TRCN0000196865 GACCCAGAAGTGACCAATTAT pLKO.1 476 CDS 100% 15.000 10.500 N KIT n/a
12 TRCN0000196504 GCTGGCATGATGTGCATTATT pLKO.1 1646 CDS 100% 15.000 10.500 N KIT n/a
13 TRCN0000271280 ACACCAGCAGTGGATCTATAT pLKO_005 1093 CDS 100% 13.200 9.240 N KIT n/a
14 TRCN0000271277 ACCATTCTGTGCGGATCAATT pLKO_005 2901 CDS 100% 13.200 9.240 N KIT n/a
15 TRCN0000363087 ACCTGAATAAATGGTAGTAAT pLKO_005 3314 3UTR 100% 13.200 9.240 N KIT n/a
16 TRCN0000271278 GGCCATGACTGTCGCTGTAAA pLKO_005 1897 CDS 100% 13.200 9.240 N KIT n/a
17 TRCN0000378437 TATCAGTTCAGCGAGAGTTAA pLKO_005 889 CDS 100% 13.200 9.240 N KIT n/a
18 TRCN0000194848 CCTGAATAAATGGTAGTAATC pLKO.1 3315 3UTR 100% 10.800 7.560 N KIT n/a
19 TRCN0000196537 GCAATTCCATTTATGTGTTTG pLKO.1 369 CDS 100% 10.800 7.560 N KIT n/a
20 TRCN0000195226 CCTTTGTGTTTCTATTGACTT pLKO.1 4730 3UTR 100% 4.950 3.465 N KIT 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_017008179.1, 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 TRCN0000492307 GACCCTAGCAAACATCTCCCTGTG pLX_317 8.5% 99.3% 99.1% V5 (not translated due to prior stop codon) (many diffs) n/a
2 TRCN0000489574 ATGTACCTACCTTTGATCAATAAA pLX_317 14.4% 99.3% 99.2% V5 (not translated due to prior stop codon) (many diffs) n/a
3 TRCN0000491939 TAAATTGCGTAAATAACATGGGTG pLX_317 14.1% 99.3% 99.2% V5 (not translated due to prior stop codon) (many diffs) n/a
4 TRCN0000489633 CGACCATCTGCTACTTCTGCCCTC pLX_317 12.8% 99.2% 99.1% V5 (not translated due to prior stop codon) (many diffs) n/a
5 TRCN0000489931 ACCCTACCACCACTTCCAAGAAAC pLX_317 15.7% 99.2% 99.1% V5 (not translated due to prior stop codon) (many diffs) n/a
6 TRCN0000488449 GACTTAACCCCCAGTGAGATAGCC pLX_317 28.8% 42.3% .4% V5 (not translated due to prior stop codon) 1_1681del;2131_2132insGCA n/a
7 TRCN0000473890 TGACTAACAATGTAAGAAATTGGA pLX_317 68% 24.8% 24.8% V5 (not translated due to prior stop codon) 1_954del;1679_2916del n/a
8 ccsbBroadEn_15338 pDONR223 100% 24.5% 24.4% None (many diffs) n/a
9 ccsbBroad304_15338 pLX_304 0% 24.5% 24.4% V5 (not translated due to frame shift) (many diffs) n/a
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