Transcript: Mouse NM_030219.2

Mus musculus tripartite motif-containing 42 (Trim42), mRNA.

Source:
NCBI, updated 2019-01-20
Taxon:
Mus musculus (mouse)
Gene:
Trim42 (78911)
Length:
2465
CDS:
115..2286

Additional Resources:

NCBI RefSeq record:
NM_030219.2
NBCI Gene record:
Trim42 (78911)

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_030219.2, 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 TRCN0000414606 GGTTAGAGCCATCAATGATAA pLKO_005 2148 CDS 100% 13.200 18.480 N Trim42 n/a
2 TRCN0000073252 CAGTCCGATATGAAATTGATA pLKO.1 1151 CDS 100% 5.625 7.875 N TRIM42 n/a
3 TRCN0000037272 CGACCATGAAAGTGAACGAAA pLKO.1 1361 CDS 100% 4.950 6.930 N Trim42 n/a
4 TRCN0000037271 GCCGCAATGTTACCATCACAT pLKO.1 401 CDS 100% 4.950 6.930 N Trim42 n/a
5 TRCN0000037270 GCGCCTTACTAAACGCTACAT pLKO.1 750 CDS 100% 4.950 6.930 N Trim42 n/a
6 TRCN0000437511 CCTAATAATGTGCGCACAGAG pLKO_005 2047 CDS 100% 4.050 5.670 N Trim42 n/a
7 TRCN0000440582 TGTGGACAAATTCGCGACATC pLKO_005 2071 CDS 100% 4.050 5.670 N Trim42 n/a
8 TRCN0000435141 CGTGGACTCCTTTGAGATGGA pLKO_005 2001 CDS 100% 2.640 2.112 N Trim42 n/a
9 TRCN0000037269 CCTCAGAACTCTACTGCTCAT pLKO.1 2300 3UTR 100% 4.050 2.835 N Trim42 n/a
10 TRCN0000037273 CCAAGTTCAAAGCAGTCCGAT pLKO.1 1139 CDS 100% 2.640 1.848 N Trim42 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 NM_030219.2, 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_16153 pDONR223 0% 85.6% 87.1% None (many diffs) n/a
2 ccsbBroad304_16153 pLX_304 0% 85.6% 87.1% V5 (many diffs) n/a
3 TRCN0000469957 AATTCTCTAGAACCCTGGCGGTCA pLX_317 30.7% 60.8% 62.3% V5 (not translated due to frame shift) (many diffs) n/a
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