Transcript: Mouse NM_027371.3

Mus musculus ribosome production factor 1 homolog (Rpf1), transcript variant 2, mRNA.

Source:
NCBI, updated 2017-05-21
Taxon:
Mus musculus (mouse)
Gene:
Rpf1 (70285)
Length:
1293
CDS:
28..1077

Additional Resources:

NCBI RefSeq record:
NM_027371.3
NBCI Gene record:
Rpf1 (70285)

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 NM_027371.3, 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 TRCN0000193853 CACAGACCTGATCGTTATTAA pLKO.1 603 CDS 100% 15.000 21.000 N Rpf1 n/a
2 TRCN0000155208 GAGCAGTGTTCGTCTTCGTAA pLKO.1 696 CDS 100% 4.950 6.930 N RPF1 n/a
3 TRCN0000292199 GAGCAGTGTTCGTCTTCGTAA pLKO_005 696 CDS 100% 4.950 6.930 N RPF1 n/a
4 TRCN0000173162 CACAGTGCATTGCAAGAGATT pLKO.1 581 CDS 100% 4.950 3.960 N Rpf1 n/a
5 TRCN0000216788 GAGCAGCTCTCAACAGTTATA pLKO.1 508 CDS 100% 13.200 9.240 N Rpf1 n/a
6 TRCN0000173795 CATTGACAACCAGCGCGTTTA pLKO.1 339 CDS 100% 10.800 7.560 N Rpf1 n/a
7 TRCN0000176074 GACGGATGAATTTGCTTCTTA pLKO.1 411 CDS 100% 5.625 3.938 N Rpf1 n/a
8 TRCN0000154377 CAGATAGACCTCATGGGAGAA pLKO.1 473 CDS 100% 4.050 2.835 N RPF1 n/a
9 TRCN0000173490 GATTTCACAGACCTGATCGTT pLKO.1 598 CDS 100% 3.000 2.100 N Rpf1 n/a
10 TRCN0000173641 CAATGATGAAGAGGTGGCTTA pLKO.1 381 CDS 100% 4.050 2.430 N Rpf1 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 NM_027371.3, 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_09006 pDONR223 100% 88% 95.1% None (many diffs) n/a
2 ccsbBroad304_09006 pLX_304 0% 88% 95.1% V5 (many diffs) n/a
3 TRCN0000473519 TGTGGTACTGAAATTACCGAAAAA pLX_317 40.1% 88% 95.1% V5 (many diffs) n/a
Download CSV