Transcript: Human XM_005258058.3

PREDICTED: Homo sapiens slingshot protein phosphatase 2 (SSH2), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
SSH2 (85464)
Length:
9377
CDS:
122..4474

Additional Resources:

NCBI RefSeq record:
XM_005258058.3
NBCI Gene record:
SSH2 (85464)

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_005258058.3, 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 TRCN0000226423 AGTACTATAGTACCGTAATAT pLKO_005 7605 3UTR 100% 15.000 21.000 N SSH2 n/a
2 TRCN0000226421 ACTACCCAGGCAGCCTATTTC pLKO_005 789 CDS 100% 13.200 18.480 N SSH2 n/a
3 TRCN0000257403 CAGAATCGAACACGCTATATG pLKO_005 503 CDS 100% 13.200 18.480 N SSH2 n/a
4 TRCN0000006943 CCAGAATCGAACACGCTATAT pLKO.1 502 CDS 100% 13.200 18.480 N SSH2 n/a
5 TRCN0000226422 TATCATAACATTCGGGTATAT pLKO_005 1262 CDS 100% 13.200 18.480 N SSH2 n/a
6 TRCN0000006941 CGAGCCTATGACTATGTGAAA pLKO.1 1451 CDS 100% 4.950 6.930 N SSH2 n/a
7 TRCN0000006942 CCACATAGTTACATCACCCAA pLKO.1 3247 CDS 100% 2.640 2.112 N SSH2 n/a
8 TRCN0000081498 GCAAAGAAACATGGATCTAAA pLKO.1 1343 CDS 100% 13.200 9.240 N Ssh2 n/a
9 TRCN0000218989 ATAGTGATCCTTGGTCAAATG pLKO_005 1097 CDS 100% 10.800 7.560 N SSH2 n/a
10 TRCN0000006940 GCCAACAAGTTTCCAGACTTA pLKO.1 1958 CDS 100% 4.950 3.465 N SSH2 n/a
11 TRCN0000006939 CCTGTCATAAACAAGCCTCTT pLKO.1 6140 3UTR 100% 4.050 2.835 N SSH2 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_005258058.3, 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 TRCN0000488828 AACTGCCTATCTGGCAAAGACCTC pLX_317 20.6% 33.4% 31.4% V5 (not translated due to prior stop codon) (many diffs) n/a
2 ccsbBroadEn_12916 pDONR223 100% 11.3% 10% None (many diffs) n/a
3 ccsbBroad304_12916 pLX_304 0% 11.3% 10% V5 (many diffs) n/a
4 TRCN0000467800 CCATCTTGTACCCAATCACTGTTA pLX_317 63.5% 11.3% 10% V5 (many diffs) n/a
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