Transcript: Mouse XM_006498993.3

PREDICTED: Mus musculus protein tyrosine phosphatase, receptor type, J (Ptprj), transcript variant X3, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Ptprj (19271)
Length:
7298
CDS:
4..3777

Additional Resources:

NCBI RefSeq record:
XM_006498993.3
NBCI Gene record:
Ptprj (19271)

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 Mouse XM_006498993.3, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000236758 TGCGGCACCGAATCCTATATT pLKO_005 171 CDS 100% 15.000 21.000 N Ptprj n/a
2 TRCN0000220439 CCGAATCCTATATTTGACATT pLKO.1 178 CDS 100% 4.950 6.930 N Ptprj n/a
3 TRCN0000220440 CCTCGGATACTTATGTCACAT pLKO.1 2396 CDS 100% 4.950 6.930 N Ptprj n/a
4 TRCN0000236757 CAGGACGGAAGTCGCCTATTT pLKO_005 2091 CDS 100% 13.200 10.560 N Ptprj n/a
5 TRCN0000220441 CGTCAACCAAACTGTCAATAA pLKO.1 993 CDS 100% 13.200 10.560 N Ptprj n/a
6 TRCN0000081297 CGGCAATGACAATCTATGAAA pLKO.1 3707 CDS 100% 5.625 4.500 N LOC433453 n/a
7 TRCN0000236760 GTAGGCAATGAAGTCTATATA pLKO_005 5341 3UTR 100% 15.000 10.500 N Ptprj n/a
8 TRCN0000236759 ACATCCGGGTGGTCAACATTA pLKO_005 1400 CDS 100% 13.200 9.240 N Ptprj n/a
9 TRCN0000081296 CCAACACTTTGAAAGATTTCT pLKO.1 3113 CDS 100% 5.625 3.938 N LOC433453 n/a
10 TRCN0000220442 CGGAGCAGTGTTTGGATGTAT pLKO.1 2685 CDS 100% 5.625 3.938 N Ptprj n/a
11 TRCN0000220438 AGTTCTTTGTTCTGTTCTGTT pLKO.1 3873 3UTR 100% 4.950 3.465 N Ptprj n/a
12 TRCN0000081293 GCAAACCCTTTCTGAAGCTAA pLKO.1 3785 3UTR 100% 4.950 3.465 N LOC433453 n/a
13 TRCN0000081295 GCCATTGTTATGTTGACCAAA pLKO.1 3163 CDS 100% 4.950 3.465 N LOC433453 n/a
14 TRCN0000236761 TTGCTGGCTTTACCAATATTA pLKO_005 2558 CDS 100% 15.000 9.000 N Ptprj n/a
15 TRCN0000081294 CGGGATTACATGAAGCAGATA pLKO.1 3430 CDS 100% 4.950 2.970 N LOC433453 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_006498993.3, 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

No results found.