Transcript: Mouse XM_006499013.3

PREDICTED: Mus musculus hnRNP-associated with lethal yellow (Raly), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Raly (19383)
Length:
5236
CDS:
177..1115

Additional Resources:

NCBI RefSeq record:
XM_006499013.3
NBCI Gene record:
Raly (19383)

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_006499013.3, 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 TRCN0000313318 TGGAGAGCCCAAGCCTAATAG pLKO_005 446 CDS 100% 13.200 18.480 N Raly n/a
2 TRCN0000349952 CGATACCTGTCAAGCTCTTTG pLKO_005 658 CDS 100% 10.800 15.120 N Raly n/a
3 TRCN0000112062 CGTGTTACAGTCCCTTTGGTT pLKO.1 621 CDS 100% 3.000 2.400 N Raly n/a
4 TRCN0000312298 CGTGTTACAGTCCCTTTGGTT pLKO_005 621 CDS 100% 3.000 2.400 N Raly n/a
5 TRCN0000374794 CCTTGCAGTAAGCAGCTTAAC pLKO_005 1105 CDS 100% 10.800 7.560 N Raly n/a
6 TRCN0000112064 CGGGTCTTCATCGGAAATCTA pLKO.1 240 CDS 100% 5.625 3.938 N Raly n/a
7 TRCN0000112060 CATCTCTGGATGCCAGTCTAT pLKO.1 1183 3UTR 100% 4.950 3.465 N Raly n/a
8 TRCN0000312299 CATCTCTGGATGCCAGTCTAT pLKO_005 1183 3UTR 100% 4.950 3.465 N Raly n/a
9 TRCN0000433520 TGACACAGATCAAGTCCAATA pLKO_005 757 CDS 100% 10.800 7.560 N RALY n/a
10 TRCN0000001272 GATGGCAAGAAGAAGGGTGAT pLKO.1 834 CDS 100% 4.050 2.835 N RALY 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_006499013.3, 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_11649 pDONR223 100% 84% 87.1% None (many diffs) n/a
2 ccsbBroad304_11649 pLX_304 0% 84% 87.1% V5 (many diffs) n/a
3 TRCN0000480518 CCTACTCTAAGTAACCGGATATCA pLX_317 42.7% 84% 87.1% V5 (many diffs) n/a
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