Transcript: Human XM_005270002.4

PREDICTED: Homo sapiens shootin 1 (SHTN1), transcript variant X2, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
SHTN1 (57698)
Length:
9558
CDS:
306..2027

Additional Resources:

NCBI RefSeq record:
XM_005270002.4
NBCI Gene record:
SHTN1 (57698)

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_005270002.4, 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 TRCN0000294282 GAGCAAGCAATAGGCGAATAT pLKO_005 357 CDS 100% 13.200 10.560 N SHTN1 n/a
2 TRCN0000062751 CGAAAGAAAGCAGAGTCATTT pLKO.1 987 CDS 100% 13.200 9.240 N SHTN1 n/a
3 TRCN0000286928 CGAAAGAAAGCAGAGTCATTT pLKO_005 987 CDS 100% 13.200 9.240 N SHTN1 n/a
4 TRCN0000294283 GAACGAGATGAAGCCGTTAAA pLKO_005 435 CDS 100% 13.200 9.240 N SHTN1 n/a
5 TRCN0000062749 CGAAGACAAAGCCAGAATCTT pLKO.1 1600 CDS 100% 5.625 3.938 N SHTN1 n/a
6 TRCN0000062752 CGAGATCAAATTGTATCTGTT pLKO.1 747 CDS 100% 4.950 3.465 N SHTN1 n/a
7 TRCN0000062750 GCAGCTCATTACCAGTCTGAA pLKO.1 335 CDS 100% 4.950 2.970 N SHTN1 n/a
8 TRCN0000286929 GCAGCTCATTACCAGTCTGAA pLKO_005 335 CDS 100% 4.950 2.970 N SHTN1 n/a
9 TRCN0000071709 GCACAAGAGATGTTCATTGAA pLKO.1 1008 CDS 100% 5.625 3.938 N Shtn1 n/a
10 TRCN0000256748 GGCAGGAGAATTGCTTGAATC pLKO_005 6737 3UTR 100% 10.800 5.400 Y SMIM11A n/a
11 TRCN0000155836 CCCAAAGTGCTGGGATTACAA pLKO.1 5570 3UTR 100% 5.625 2.813 Y KLHL30 n/a
12 TRCN0000166364 CACACACACACACACACACAA pLKO.1 4111 3UTR 100% 4.950 2.475 Y KAAG1 n/a
13 TRCN0000140719 GATCACTTGAGGTCAGGAGTT pLKO.1 6610 3UTR 100% 4.050 2.025 Y P3H4 n/a
14 TRCN0000165299 GATCACTTGAGGTCAGGAGTT pLKO.1 6610 3UTR 100% 4.050 2.025 Y ORAI2 n/a
15 TRCN0000352971 GATCACTTGAGGTCAGGAGTT pLKO_005 6610 3UTR 100% 4.050 2.025 Y P3H4 n/a
16 TRCN0000141025 CCCAAAGTGCTGGGATTACTT pLKO.1 5570 3UTR 100% 5.625 2.813 Y EID2B 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_005270002.4, 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_12395 pDONR223 100% 97.3% 97.3% None 1675_1719del n/a
2 ccsbBroad304_12395 pLX_304 0% 97.3% 97.3% V5 1675_1719del n/a
3 TRCN0000492086 TAAAATCTGCCCGTAGTTAATCAG pLX_317 26.8% 97.3% 97.3% V5 1675_1719del n/a
4 ccsbBroadEn_12394 pDONR223 100% 9.2% 8.5% None (many diffs) n/a
5 ccsbBroad304_12394 pLX_304 0% 9.2% 8.5% V5 (many diffs) n/a
6 TRCN0000469471 ATTTTATTATCGAGGAAGTGACGT pLX_317 93.9% 9.2% 8.5% V5 (many diffs) n/a
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