Transcript: Mouse XM_006496879.3

PREDICTED: Mus musculus RAB GTPase activating protein 1-like (Rabgap1l), transcript variant X5, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Rabgap1l (29809)
Length:
5741
CDS:
784..2649

Additional Resources:

NCBI RefSeq record:
XM_006496879.3
NBCI Gene record:
Rabgap1l (29809)

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_006496879.3, 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 TRCN0000106040 GCCCAAAGATAAACGGGTGTA pLKO.1 1932 CDS 100% 4.050 5.670 N Rabgap1l n/a
2 TRCN0000106041 GCCACTTCTATAAAGGATGAT pLKO.1 883 CDS 100% 4.950 3.960 N Rabgap1l n/a
3 TRCN0000048389 GCCTAAGGATAGAGATAAATT pLKO.1 1665 CDS 100% 15.000 10.500 N RABGAP1L n/a
4 TRCN0000305118 TGCCTAAGGATAGAGATAAAT pLKO_005 1664 CDS 100% 15.000 10.500 N Rabgap1l n/a
5 TRCN0000337484 GGCAGAAGTATGGCAACTATT pLKO_005 2415 CDS 100% 13.200 9.240 N Rabgap1l n/a
6 TRCN0000305183 GTTAGGAAGATGGCACAATAA pLKO_005 2331 CDS 100% 13.200 9.240 N Rabgap1l n/a
7 TRCN0000106043 TGTGAAATTAAAGAGGCAGTA pLKO.1 1483 CDS 100% 4.050 2.835 N Rabgap1l n/a
8 TRCN0000225681 CTCCGCTGTTACACCATTATA pLKO_005 2915 3UTR 100% 15.000 7.500 Y Gpr52 n/a
9 TRCN0000218366 TGATCATCTCTGGGAATTTAA pLKO_005 2870 3UTR 100% 15.000 7.500 Y Gpr52 n/a
10 TRCN0000225682 TGCCAGGTGTTTGGATATATT pLKO_005 3052 3UTR 100% 15.000 7.500 Y Gpr52 n/a
11 TRCN0000218384 GGATCGATATCTTGCAATAAC pLKO_005 3123 3UTR 100% 13.200 6.600 Y Gpr52 n/a
12 TRCN0000217970 TTGTCTGCTTCACTTACTTTC pLKO_005 3365 3UTR 100% 10.800 5.400 Y Gpr52 n/a
13 TRCN0000011604 CCAAAGAGATAAATGACCGAA pLKO.1 3413 3UTR 100% 2.640 1.320 Y GPR52 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_006496879.3, 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.

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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_11431 pDONR223 100% 77.1% 76.8% None (many diffs) n/a
2 ccsbBroad304_11431 pLX_304 0% 77.1% 76.8% V5 (many diffs) n/a
3 TRCN0000478216 ACTTTGCACACAACGTACGGCAGA pLX_317 17.3% 77.1% 76.8% V5 (many diffs) n/a
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