Transcript: Mouse XR_001781855.1

PREDICTED: Mus musculus TNF receptor-associated protein 1 (Trap1), transcript variant X1, misc_RNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Trap1 (68015)
Length:
2484
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_001781855.1
NBCI Gene record:
Trap1 (68015)

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_001781855.1, 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 TRCN0000339766 GGCTGAACATTCACCCTATTA pLKO_005 1590 3UTR 100% 13.200 18.480 N Trap1 n/a
2 TRCN0000339765 ATGCCAAGAAGGGCACTATTA pLKO_005 512 3UTR 100% 13.200 10.560 N Trap1 n/a
3 TRCN0000112170 CCGTTATATTGCTCAGGCTTA pLKO.1 1014 3UTR 100% 4.050 3.240 N Trap1 n/a
4 TRCN0000339764 CCGTTATATTGCTCAGGCTTA pLKO_005 1014 3UTR 100% 4.050 3.240 N Trap1 n/a
5 TRCN0000112173 CCTTAATGGAAAGCGGATTAA pLKO.1 927 3UTR 100% 1.320 1.056 N Trap1 n/a
6 TRCN0000339838 CCTTAATGGAAAGCGGATTAA pLKO_005 927 3UTR 100% 1.320 1.056 N Trap1 n/a
7 TRCN0000244241 TGGTTCTGGAGTGTTTGAAAT pLKO_005 771 3UTR 100% 13.200 9.240 N TRAP1 n/a
8 TRCN0000112171 GCAAGACATCAAGGAGGATAT pLKO.1 1440 3UTR 100% 10.800 7.560 N Trap1 n/a
9 TRCN0000112172 GCTGACAAGGTTGAAGTCTAT pLKO.1 703 3UTR 100% 4.950 3.465 N Trap1 n/a
10 TRCN0000351040 GCTGACAAGGTTGAAGTCTAT pLKO_005 703 3UTR 100% 4.950 3.465 N Trap1 n/a
11 TRCN0000112174 GCGTGGATGAGAAATGCACTA pLKO.1 1819 3UTR 100% 4.050 2.430 N Trap1 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_001781855.1, 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 TRCN0000488380 ATTTCAGTCGATCTCTCTACCCTC pLX_317 18.7% 46.6% V5 (not translated due to prior stop codon) (many diffs) n/a
Download CSV