Transcript: Human XM_005267015.2

PREDICTED: Homo sapiens sorting nexin 9 (SNX9), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
SNX9 (51429)
Length:
3793
CDS:
364..2130

Additional Resources:

NCBI RefSeq record:
XM_005267015.2
NBCI Gene record:
SNX9 (51429)

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_005267015.2, 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 TRCN0000381540 TATGGCCCAATGTGGGTTTAT pLKO_005 1057 CDS 100% 13.200 18.480 N SNX9 n/a
2 TRCN0000380832 TTCACAGTAACCGGATCTATG pLKO_005 2006 CDS 100% 10.800 15.120 N Snx9 n/a
3 TRCN0000147249 GATGGAATGTAATCACGAGTA pLKO.1 1809 CDS 100% 4.050 5.670 N SNX9 n/a
4 TRCN0000381276 ATGTGTCGCCATCCAGTAATC pLKO_005 1354 CDS 100% 10.800 8.640 N SNX9 n/a
5 TRCN0000380378 CCGCTTTGAAGAGGAATTTAT pLKO_005 1293 CDS 100% 15.000 10.500 N SNX9 n/a
6 TRCN0000417815 TCATTTCCGCATCCATTATTT pLKO_005 2318 3UTR 100% 15.000 10.500 N SNX9 n/a
7 TRCN0000380305 AGCACTTTGACTGGTTATATG pLKO_005 1205 CDS 100% 13.200 9.240 N SNX9 n/a
8 TRCN0000379878 ATAATGAACTGACGGTTAATG pLKO_005 392 CDS 100% 13.200 9.240 N SNX9 n/a
9 TRCN0000380347 CTAAAGAGCTACATCGAATAT pLKO_005 1138 CDS 100% 13.200 9.240 N SNX9 n/a
10 TRCN0000149857 GCCATCCAGTAATCTCAGAAA pLKO.1 1361 CDS 100% 4.950 3.465 N SNX9 n/a
11 TRCN0000147379 GCTAACACCTACTAACACTAA pLKO.1 1161 CDS 100% 4.950 3.465 N SNX9 n/a
12 TRCN0000146586 CCCTTAACAAATTTCCTGGAT pLKO.1 953 CDS 100% 2.640 1.848 N SNX9 n/a
13 TRCN0000147006 CAAGCTGAGATGAATCACTTT pLKO.1 1987 CDS 100% 4.950 2.475 Y SNX9 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_005267015.2, 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_08290 pDONR223 100% 98.7% 98.6% None 0_1ins21;246G>C n/a
2 ccsbBroad304_08290 pLX_304 0% 98.7% 98.6% V5 0_1ins21;246G>C n/a
3 TRCN0000467316 TTTGCGCCCGGTCTCGGCCTCAGT pLX_317 16.3% 98.7% 98.6% V5 0_1ins21;246G>C n/a
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