Transcript: Mouse XM_006520650.1

PREDICTED: Mus musculus retinoic acid receptor, gamma (Rarg), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Rarg (19411)
Length:
2955
CDS:
493..1869

Additional Resources:

NCBI RefSeq record:
XM_006520650.1
NBCI Gene record:
Rarg (19411)

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_006520650.1, 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 TRCN0000027095 CGGGTCTATAAGCCATGCTTT pLKO.1 745 CDS 100% 4.950 6.930 N Rarg n/a
2 TRCN0000222432 GCTCAGCATTGCCGACCAGAT pLKO.1 1251 CDS 100% 1.350 1.890 N Rarg n/a
3 TRCN0000279194 GCTCAGCATTGCCGACCAGAT pLKO_005 1251 CDS 100% 1.350 1.890 N Rarg n/a
4 TRCN0000236364 CCCAGAGGAAGCCTCTATTTA pLKO_005 2673 3UTR 100% 15.000 12.000 N RARG n/a
5 TRCN0000279129 TGCGGATCTGTACAAGGTATA pLKO_005 1310 CDS 100% 10.800 8.640 N Rarg n/a
6 TRCN0000279195 AGCCTGGGTCTAGACTCTAAA pLKO_005 2098 3UTR 100% 13.200 9.240 N Rarg n/a
7 TRCN0000222431 AGGGAGCAGAAAGGGCTATAA pLKO.1 1667 CDS 100% 13.200 9.240 N Rarg n/a
8 TRCN0000279131 GAGCAGGACACTATGACATTC pLKO_005 1336 CDS 100% 10.800 7.560 N Rarg n/a
9 TRCN0000279128 TGCTTGTCTGGACATCCTAAT pLKO_005 1287 CDS 100% 10.800 7.560 N Rarg n/a
10 TRCN0000222433 CAATGACAAGTCTTCTGGCTA pLKO.1 771 CDS 100% 2.640 1.848 N Rarg n/a
11 TRCN0000222434 CATTTGAGATGCTGAGCCCTA pLKO.1 605 CDS 100% 2.160 1.512 N Rarg n/a
12 TRCN0000236362 TCTGCCAGCTGGGCAAGTATA pLKO_005 1103 CDS 100% 13.200 6.600 Y RARG 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_006520650.1, 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_01377 pDONR223 100% 88.9% 97.1% None (many diffs) n/a
2 ccsbBroad304_01377 pLX_304 0% 88.9% 97.1% V5 (many diffs) n/a
3 TRCN0000477930 AAATCGCTCGATATGCAACCGACA pLX_317 26.4% 88.9% 97.1% V5 (many diffs) n/a
4 TRCN0000492180 GAGCGTTCAAATGCTATAAACGGT pLX_317 26.3% 88.8% 97.1% V5 (not translated due to prior stop codon) (many diffs) n/a
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