Transcript: Human XM_017021434.2

PREDICTED: Homo sapiens Rho guanine nucleotide exchange factor 40 (ARHGEF40), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
ARHGEF40 (55701)
Length:
6237
CDS:
1007..5002

Additional Resources:

NCBI RefSeq record:
XM_017021434.2
NBCI Gene record:
ARHGEF40 (55701)

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_017021434.2, 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 TRCN0000436386 TGGAACAGCTGACTCGGTATG pLKO_005 4053 CDS 100% 6.000 8.400 N ARHGEF40 n/a
2 TRCN0000136388 CGCTGAACACAACTCTTCATT pLKO.1 2130 CDS 100% 5.625 7.875 N ARHGEF40 n/a
3 TRCN0000418282 CACCTGGTTAAGGAGGAATAT pLKO_005 1715 CDS 100% 13.200 9.240 N ARHGEF40 n/a
4 TRCN0000134459 GCTGAACACAACTCTTCATTA pLKO.1 2131 CDS 100% 13.200 9.240 N ARHGEF40 n/a
5 TRCN0000433037 AGAAGGTGCTGGATATCTTTG pLKO_005 2982 CDS 100% 10.800 7.560 N ARHGEF40 n/a
6 TRCN0000135758 CCAACTGAACTCTGTGGATTT pLKO.1 2324 CDS 100% 10.800 7.560 N ARHGEF40 n/a
7 TRCN0000437757 GAGCTCATCTGTCCACGATTT pLKO_005 968 5UTR 100% 10.800 7.560 N ARHGEF40 n/a
8 TRCN0000437114 GGATCTGGACGTCAAGCAAAT pLKO_005 4789 CDS 100% 10.800 7.560 N ARHGEF40 n/a
9 TRCN0000163368 GCCACATTGCTTGCCTTCATA pLKO.1 5214 3UTR 100% 5.625 3.938 N ARHGEF40 n/a
10 TRCN0000163309 GACACGCTGAACACAACTCTT pLKO.1 2126 CDS 100% 4.950 3.465 N ARHGEF40 n/a
11 TRCN0000161681 GCTGTCAGAGAATGATCTGAA pLKO.1 2359 CDS 100% 0.495 0.347 N ARHGEF40 n/a
12 TRCN0000423630 TGTTTACAAGCAGGCCTTTAA pLKO_005 4369 CDS 100% 13.200 7.920 N ARHGEF40 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_017021434.2, 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_12256 pDONR223 100% 24.4% 24.4% None 1_3003del;3811_3822del n/a
2 ccsbBroad304_12256 pLX_304 0% 24.4% 24.4% V5 1_3003del;3811_3822del n/a
3 TRCN0000473647 CTTTGCAATACGACTTCTAGGTGT pLX_317 45.4% 24.4% 24.4% V5 1_3003del;3811_3822del n/a
4 ccsbBroadEn_12257 pDONR223 98.6% 24.4% 24.4% None 1_3003del;3676A>C;3811_3822del n/a
5 ccsbBroad304_12257 pLX_304 0% 24.4% 24.4% V5 (not translated due to prior stop codon) 1_3003del;3676A>C;3811_3822del n/a
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