Transcript: Mouse XR_380379.1

PREDICTED: Mus musculus polypyrimidine tract binding protein 1 (Ptbp1), transcript variant X1, misc_RNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Ptbp1 (19205)
Length:
1781
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_380379.1
NBCI Gene record:
Ptbp1 (19205)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the exonic sequence of this non-coding 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 XR_380379.1, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000295168 CACTATGGTTAACTACTATAC pLKO_005 603 3UTR 100% 10.800 7.560 N Ptbp1 n/a
2 TRCN0000109272 CTCAATGTCAAGTACAACAAT pLKO.1 1066 3UTR 100% 5.625 3.938 N Ptbp1 n/a
3 TRCN0000287703 CTCAATGTCAAGTACAACAAT pLKO_005 1066 3UTR 100% 5.625 3.938 N Ptbp1 n/a
4 TRCN0000109273 CAGTCTCAATGTCAAGTACAA pLKO.1 1062 3UTR 100% 4.950 3.465 N Ptbp1 n/a
5 TRCN0000109274 GCGGGTGAAGATCCTGTTCAA pLKO.1 1415 3UTR 100% 4.950 3.465 N Ptbp1 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 XR_380379.1, 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.

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_06809 pDONR223 100% 66.5% None (many diffs) n/a
2 ccsbBroad304_06809 pLX_304 0% 66.5% V5 (many diffs) n/a
3 TRCN0000468937 CCCGGCTTTATTTAGTGACAACTA pLX_317 23.7% 66.5% V5 (many diffs) n/a
4 ccsbBroadEn_01329 pDONR223 100% 62.9% None (many diffs) n/a
5 ccsbBroad304_01329 pLX_304 0% 62.9% V5 (many diffs) n/a
6 TRCN0000468210 AAAACCTTCTTTATGTACGACGAG pLX_317 29.2% 62.9% V5 (many diffs) n/a
Download CSV