Transcript: Human NM_001330204.2

Homo sapiens protein tyrosine phosphatase receptor type B (PTPRB), transcript variant 5, mRNA.

Source:
NCBI, updated 2019-08-03
Taxon:
Homo sapiens (human)
Gene:
PTPRB (5787)
Length:
12037
CDS:
35..6418

Additional Resources:

NCBI RefSeq record:
NM_001330204.2
NBCI Gene record:
PTPRB (5787)

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 NM_001330204.2, 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 TRCN0000382161 CCGCAACCGAGTATCGATTTA pLKO_005 3030 CDS 100% 13.200 18.480 N PTPRB n/a
2 TRCN0000381026 TTCGTAGGGATCGACCATTAT pLKO_005 5400 CDS 100% 13.200 18.480 N PTPRB n/a
3 TRCN0000002843 CGGGTGTATCAGACTAATTAT pLKO.1 4988 CDS 100% 15.000 10.500 N PTPRB n/a
4 TRCN0000381060 TCAGCCAGGAGTGACTATTTA pLKO_005 2648 CDS 100% 15.000 10.500 N PTPRB n/a
5 TRCN0000350252 TCGGGTGTATCAGACTAATTA pLKO_005 4987 CDS 100% 15.000 10.500 N PTPRB n/a
6 TRCN0000002842 CCAAGGAATACGAGGAGTTAA pLKO.1 5535 CDS 100% 13.200 9.240 N PTPRB n/a
7 TRCN0000320454 CCAAGGAATACGAGGAGTTAA pLKO_005 5535 CDS 100% 13.200 9.240 N PTPRB n/a
8 TRCN0000002841 GCCACCACTAAGCAACACAAA pLKO.1 3557 CDS 100% 4.950 3.465 N PTPRB n/a
9 TRCN0000320453 GCCACCACTAAGCAACACAAA pLKO_005 3557 CDS 100% 4.950 3.465 N PTPRB n/a
10 TRCN0000002844 ACTTGCTTCATGCCCTACAGA pLKO.1 6477 3UTR 100% 3.000 2.100 N PTPRB n/a
11 TRCN0000320382 ACTTGCTTCATGCCCTACAGA pLKO_005 6477 3UTR 100% 3.000 2.100 N PTPRB n/a
12 TRCN0000116737 CCTCCCAAGTAGCTGGAATTA pLKO.1 9576 3UTR 100% 13.200 6.600 Y CLDN18 n/a
13 TRCN0000072628 CCTCCCAAAGTGCTAGGATTA pLKO.1 9711 3UTR 100% 10.800 5.400 Y MRPS16 n/a
14 TRCN0000140657 CCTCCCAAAGTGCTAGGATAA pLKO.1 9711 3UTR 100% 10.800 5.400 Y CD3EAP 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 NM_001330204.2, 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_11076 pDONR223 100% 36.2% 36.2% None 935G>A;963A>T;2314_6381del n/a
2 ccsbBroad304_11076 pLX_304 0% 36.2% 36.2% V5 935G>A;963A>T;2314_6381del n/a
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