Transcript: Mouse XM_006501914.1

PREDICTED: Mus musculus PRP38 pre-mRNA processing factor 38 (yeast) domain containing B (Prpf38b), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Prpf38b (66921)
Length:
3062
CDS:
658..1950

Additional Resources:

NCBI RefSeq record:
XM_006501914.1
NBCI Gene record:
Prpf38b (66921)

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_006501914.1, 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 TRCN0000294676 GATCACATTGAATCCTATAAA pLKO_005 1967 3UTR 100% 15.000 21.000 N Prpf38b n/a
2 TRCN0000123600 CGAAGACGAGACCGAGATTAT pLKO.1 1414 CDS 100% 13.200 18.480 N Prpf38b n/a
3 TRCN0000298308 CGAAGACGAGACCGAGATTAT pLKO_005 1414 CDS 100% 13.200 18.480 N Prpf38b n/a
4 TRCN0000294732 TGTCGTCGCCTTACTTCAAAG pLKO_005 471 5UTR 100% 10.800 8.640 N Prpf38b n/a
5 TRCN0000123599 GCCCTATACTAAGGAGTGATT pLKO.1 2708 3UTR 100% 4.950 3.960 N Prpf38b n/a
6 TRCN0000123603 CCATTGGAGAGATGCTTCGTT pLKO.1 920 CDS 100% 3.000 2.400 N Prpf38b n/a
7 TRCN0000306929 CATACAGACTCTCCATATATC pLKO_005 775 CDS 100% 13.200 9.240 N Prpf38b n/a
8 TRCN0000123602 CCAGTCCAGAAGAACATTGAT pLKO.1 994 CDS 100% 5.625 3.938 N Prpf38b n/a
9 TRCN0000123601 GAGGCATTGTTTCTACAGCAT pLKO.1 689 CDS 100% 2.640 1.848 N Prpf38b n/a
10 TRCN0000294733 AGCAAGGAGAAGGCAAATAAA pLKO_005 1699 CDS 100% 15.000 9.000 N Prpf38b n/a
11 TRCN0000074334 CGAAAGCAAGTGATGGGTCTT pLKO.1 748 CDS 100% 4.050 2.835 N PRPF38B 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_006501914.1, 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_12162 pDONR223 100% 13.3% 13.8% None (many diffs) n/a
2 ccsbBroad304_12162 pLX_304 0% 13.3% 13.8% V5 (many diffs) n/a
3 TRCN0000467230 TTGATTCCCGCAGGTTAACACAGA pLX_317 57.2% 13.3% 13.8% V5 (many diffs) n/a
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