Transcript: Human XM_005269470.2

PREDICTED: Homo sapiens SEC23 interacting protein (SEC23IP), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
SEC23IP (11196)
Length:
4820
CDS:
378..3239

Additional Resources:

NCBI RefSeq record:
XM_005269470.2
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 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_005269470.2, 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 1283 CDS 100% 15.000 21.000 N SEC23IP n/a
2 TRCN0000064954 CGCTACGATGTTTACCTCTAT pLKO.1 1188 CDS 100% 4.950 6.930 N SEC23IP n/a
3 TRCN0000064955 CGCTTGATCCAGTGGCATATA pLKO.1 2704 CDS 100% 13.200 10.560 N SEC23IP n/a
4 TRCN0000434558 GTATTGTTAGTGGGCTATTAA pLKO_005 3604 3UTR 100% 15.000 10.500 N SEC23IP n/a
5 TRCN0000432555 TCGCTCTTCAGAGTCACTTAT pLKO_005 3130 CDS 100% 13.200 9.240 N SEC23IP n/a
6 TRCN0000433211 GATGCCTCAAGTTGACCATTT pLKO_005 1553 CDS 100% 10.800 7.560 N SEC23IP n/a
7 TRCN0000416380 TTGCCAAGTATTGGTCGATTT pLKO_005 1800 CDS 100% 10.800 7.560 N SEC23IP n/a
8 TRCN0000064953 CCAATGAAACTTTGCTAGATA pLKO.1 1831 CDS 100% 5.625 3.938 N SEC23IP n/a
9 TRCN0000064957 GCTCTGTTACTACTTAAAGAA pLKO.1 3174 CDS 100% 5.625 3.938 N SEC23IP n/a
10 TRCN0000064956 CCTGTGTGTGACTTACGCTTT pLKO.1 1599 CDS 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 XM_005269470.2, 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% 95% 94% None (many diffs) n/a
2 ccsbBroad304_14065 pLX_304 0% 95% 94% V5 (not translated due to frame shift) (many diffs) n/a
3 TRCN0000472422 AGGCCGGAGTGTTCCCAGATCCTT pLX_317 12.9% 95% 94% V5 (not translated due to frame shift) (many diffs) n/a
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