Transcript: Mouse XM_006531826.2

PREDICTED: Mus musculus RNA binding motif protein 4B (Rbm4b), transcript variant X5, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Rbm4b (66704)
Length:
4542
CDS:
167..1240

Additional Resources:

NCBI RefSeq record:
XM_006531826.2
NBCI Gene record:
Rbm4b (66704)

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_006531826.2, 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 TRCN0000339567 AGCAGTGCGCACACCTTATAC pLKO_005 751 CDS 100% 13.200 18.480 N Rbm4b n/a
2 TRCN0000339566 CCTTATGACAGACACCTATTG pLKO_005 974 CDS 100% 10.800 15.120 N Rbm4b n/a
3 TRCN0000103721 GCACACCTTATACTATGGGTT pLKO.1 759 CDS 100% 2.640 3.696 N Rbm4b n/a
4 TRCN0000339497 GCCGCTTCCTCTTCCTATTAT pLKO_005 1037 CDS 100% 15.000 10.500 N Rbm4b n/a
5 TRCN0000351096 ATGGAGCACTTGACTACTATA pLKO_005 810 CDS 100% 13.200 9.240 N Rbm4b n/a
6 TRCN0000339496 AGGAATTTGTGACCAACTATG pLKO_005 4054 3UTR 100% 10.800 7.560 N Rbm4b n/a
7 TRCN0000103720 GCCAGGATGTTTCCATTGCTT pLKO.1 4016 3UTR 100% 3.000 2.100 N Rbm4b n/a
8 TRCN0000103723 CGCATACAATTACGCAGAGCA pLKO.1 883 CDS 100% 2.640 1.848 N Rbm4b n/a
9 TRCN0000159895 GCTTCATGTTTCAGTAAACAA pLKO.1 4033 3UTR 100% 0.563 0.394 N RBM4B n/a
10 TRCN0000292338 GCTTCATGTTTCAGTAAACAA pLKO_005 4033 3UTR 100% 0.563 0.394 N RBM4B n/a
11 TRCN0000103722 GCAACTCGGAATTCTCTGTAT pLKO.1 1160 CDS 100% 0.000 0.000 N Rbm4b n/a
12 TRCN0000158726 GCTGGAATGTGACATCATTAA pLKO.1 250 CDS 100% 13.200 6.600 Y RBM4 n/a
13 TRCN0000103964 CCCAGTCATCGAATGTGACAT pLKO.1 472 CDS 100% 4.950 2.475 Y Rbm4 n/a
14 TRCN0000103724 GCCAGCAAGAATAAGAGCAAA pLKO.1 371 CDS 100% 4.950 2.475 Y Rbm4b n/a
15 TRCN0000161617 GCCAGCAAGAATAAGAGCAAA pLKO.1 371 CDS 100% 4.950 2.475 Y RBM4B 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_006531826.2, 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_09114 pDONR223 100% 90.3% 96.1% None (many diffs) n/a
2 ccsbBroad304_09114 pLX_304 0% 90.3% 96.1% V5 (many diffs) n/a
3 TRCN0000466951 CTTCCGCGACGGGCGACCCGGAAC pLX_317 15.6% 90.3% 96.1% V5 (many diffs) n/a
4 ccsbBroadEn_01382 pDONR223 100% 82.6% 87.6% None (many diffs) n/a
5 ccsbBroad304_01382 pLX_304 0% 82.6% 87.6% V5 (many diffs) n/a
6 TRCN0000467520 CATTGTCTACCGGTTTAACTCAAT pLX_317 39.8% 82.6% 87.6% V5 (many diffs) n/a
7 ccsbBroadEn_11091 pDONR223 100% 41.7% 40% None (many diffs) n/a
8 ccsbBroad304_11091 pLX_304 0% 41.7% 40% V5 (many diffs) n/a
9 TRCN0000471664 CTCAACATACTGAACCTTCAGTAA pLX_317 68.7% 41.7% 40% V5 (many diffs) n/a
10 ccsbBroadEn_15562 pDONR223 0% 36.8% 38.6% None (many diffs) n/a
11 ccsbBroad304_15562 pLX_304 0% 36.8% 38.6% V5 (many diffs) n/a
12 TRCN0000479076 GACCCGACTCACAATTGGTGACGT pLX_317 84.4% 36.8% 38.6% V5 (many diffs) n/a
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