Transcript: Mouse XM_006510084.3

PREDICTED: Mus musculus platelet-activating factor acetylhydrolase, isoform 1b, subunit 2 (Pafah1b2), transcript variant X3, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Pafah1b2 (18475)
Length:
4454
CDS:
392..1081

Additional Resources:

NCBI RefSeq record:
XM_006510084.3
NBCI Gene record:
Pafah1b2 (18475)

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_006510084.3, 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 TRCN0000098231 CCCACTTCATGCTCTTAATTT pLKO.1 583 CDS 100% 15.000 21.000 N Pafah1b2 n/a
2 TRCN0000309119 CCCACTTCATGCTCTTAATTT pLKO_005 583 CDS 100% 15.000 21.000 N Pafah1b2 n/a
3 TRCN0000098233 AGGTTTGTTCTGGACTGTAAA pLKO.1 479 CDS 100% 13.200 18.480 N Pafah1b2 n/a
4 TRCN0000315593 AGGTTTGTTCTGGACTGTAAA pLKO_005 479 CDS 100% 13.200 18.480 N Pafah1b2 n/a
5 TRCN0000098232 GTAGGGACAAACAACCACGAA pLKO.1 695 CDS 100% 2.640 3.696 N Pafah1b2 n/a
6 TRCN0000315592 GTAGGGACAAACAACCACGAA pLKO_005 695 CDS 100% 2.640 3.696 N Pafah1b2 n/a
7 TRCN0000098230 GCTGATTATCATGTCTGTAAT pLKO.1 1660 3UTR 100% 13.200 9.240 N Pafah1b2 n/a
8 TRCN0000309112 GCTGATTATCATGTCTGTAAT pLKO_005 1660 3UTR 100% 13.200 9.240 N Pafah1b2 n/a
9 TRCN0000098234 GAGGCTATTGTACAACTTATA pLKO.1 746 CDS 100% 13.200 7.920 N Pafah1b2 n/a
10 TRCN0000309050 GAGGCTATTGTACAACTTATA pLKO_005 746 CDS 100% 13.200 7.920 N Pafah1b2 n/a
Download CSV

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_006510084.3, 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.

Download CSV

All ORF constructs matching this transcript

Clone ID DNA Barcode Vector Sequenced %[?] Nuc. Match %[?] Prot. Match %[?] Epitope Tag Match Diffs[?] Addgene[?]
1 ccsbBroadEn_01142 pDONR223 100% 91.2% 99.5% None (many diffs) n/a
2 ccsbBroad304_01142 pLX_304 0% 91.2% 99.5% V5 (many diffs) n/a
3 TRCN0000471676 GGAACTCCACTAATAATCTAGCCA pLX_317 56.7% 91.2% 99.5% V5 (many diffs) n/a
Download CSV