Transcript: Human XM_017025898.1

PREDICTED: Homo sapiens protein tyrosine phosphatase receptor type M (PTPRM), transcript variant X5, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
PTPRM (5797)
Length:
5200
CDS:
58..4503

Additional Resources:

NCBI RefSeq record:
XM_017025898.1
NBCI Gene record:
PTPRM (5797)

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_017025898.1, 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 TRCN0000273326 GTCGATTCCACGAGCTATAAA pLKO_005 1039 CDS 100% 15.000 21.000 N PTPRM n/a
2 TRCN0000273327 CAAGACGTTCCATGGTATTTG pLKO_005 4548 3UTR 100% 13.200 18.480 N PTPRM n/a
3 TRCN0000002881 CGACGCTTCATTGCTTCATTT pLKO.1 757 CDS 100% 13.200 18.480 N PTPRM n/a
4 TRCN0000318666 CGACGCTTCATTGCTTCATTT pLKO_005 757 CDS 100% 13.200 18.480 N PTPRM n/a
5 TRCN0000379486 GCTATCTGGCATTATGGTAAT pLKO_005 4891 3UTR 100% 10.800 15.120 N PTPRM n/a
6 TRCN0000002880 CCCTCAACACACGATCACTAA pLKO.1 1365 CDS 100% 4.950 6.930 N PTPRM n/a
7 TRCN0000002878 GCCCTCATGGACAGCTATAAA pLKO.1 3880 CDS 100% 15.000 10.500 N PTPRM n/a
8 TRCN0000273324 CATCTTGCTGTTCGTGATTAT pLKO_005 2364 CDS 100% 13.200 9.240 N PTPRM n/a
9 TRCN0000380011 CTATGCAGAGTTGGTAGTTAA pLKO_005 858 CDS 100% 13.200 9.240 N PTPRM n/a
10 TRCN0000002882 GAGTCGTCGTTTCTGTCAGAT pLKO.1 5018 3UTR 100% 4.950 3.465 N PTPRM 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_017025898.1, 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_11078 pDONR223 100% 93.6% 93.5% None (many diffs) n/a
2 ccsbBroad304_11078 pLX_304 0% 93.6% 93.5% V5 (many diffs) n/a
3 TRCN0000481445 CATTTCGACCGGGCGGCTAGACTT pLX_317 11.2% 93.6% 93.5% V5 (many diffs) n/a
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