Transcript: Human XR_246061.2

PREDICTED: Homo sapiens SEC23 interacting protein (SEC23IP), transcript variant X1, misc_RNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
SEC23IP (11196)
Length:
4352
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_246061.2
NBCI Gene record:
SEC23IP (11196)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the exonic sequence of this non-coding 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 XR_246061.2, 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 TRCN0000426033 GGACACAGATAGTCGATTTAT pLKO_005 1134 3UTR 100% 15.000 21.000 N SEC23IP n/a
2 TRCN0000064954 CGCTACGATGTTTACCTCTAT pLKO.1 1039 3UTR 100% 4.950 6.930 N SEC23IP n/a
3 TRCN0000064955 CGCTTGATCCAGTGGCATATA pLKO.1 2555 3UTR 100% 13.200 10.560 N SEC23IP n/a
4 TRCN0000432555 TCGCTCTTCAGAGTCACTTAT pLKO_005 2981 3UTR 100% 13.200 9.240 N SEC23IP n/a
5 TRCN0000433211 GATGCCTCAAGTTGACCATTT pLKO_005 1404 3UTR 100% 10.800 7.560 N SEC23IP n/a
6 TRCN0000416380 TTGCCAAGTATTGGTCGATTT pLKO_005 1651 3UTR 100% 10.800 7.560 N SEC23IP n/a
7 TRCN0000064953 CCAATGAAACTTTGCTAGATA pLKO.1 1682 3UTR 100% 5.625 3.938 N SEC23IP n/a
8 TRCN0000064957 GCTCTGTTACTACTTAAAGAA pLKO.1 3025 3UTR 100% 5.625 3.938 N SEC23IP n/a
9 TRCN0000064956 CCTGTGTGTGACTTACGCTTT pLKO.1 1450 3UTR 100% 4.050 2.835 N SEC23IP 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 XR_246061.2, 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_14065 pDONR223 100% 68.9% None 1_87del;3073delG;3088_4352del n/a
2 ccsbBroad304_14065 pLX_304 0% 68.9% V5 (not translated due to frame shift) 1_87del;3073delG;3088_4352del n/a
3 TRCN0000472422 AGGCCGGAGTGTTCCCAGATCCTT pLX_317 12.9% 68.9% V5 (not translated due to frame shift) 1_87del;3073delG;3088_4352del n/a
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