Transcript: Human XM_011512740.3

PREDICTED: Homo sapiens tripartite motif containing 42 (TRIM42), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
TRIM42 (287015)
Length:
2676
CDS:
178..2361

Additional Resources:

NCBI RefSeq record:
XM_011512740.3
NBCI Gene record:
TRIM42 (287015)

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 Human XM_011512740.3, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000037273 CCAAGTTCAAAGCAGTCCGAT pLKO.1 1202 CDS 100% 2.640 2.112 N Trim42 n/a
2 TRCN0000442997 AGCTCCGGCTGCACTCAATAA pLKO_005 1574 CDS 100% 13.200 9.240 N TRIM42 n/a
3 TRCN0000418398 ATCTCAACTGCTACTACTATG pLKO_005 431 CDS 100% 10.800 7.560 N TRIM42 n/a
4 TRCN0000437853 CCATGCAAGACCACGTCTTTG pLKO_005 989 CDS 100% 10.800 7.560 N TRIM42 n/a
5 TRCN0000073251 CCGCAATACCATCATCACTTT pLKO.1 465 CDS 100% 4.950 3.465 N TRIM42 n/a
6 TRCN0000073249 GCAGAGATGTTGTCCTCAGTT pLKO.1 219 CDS 100% 4.950 3.465 N TRIM42 n/a
7 TRCN0000073250 CCCAACACAGAATACGTGTTT pLKO.1 2188 CDS 100% 0.495 0.347 N TRIM42 n/a
8 TRCN0000073252 CAGTCCGATATGAAATTGATA pLKO.1 1214 CDS 100% 5.625 3.375 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 XM_011512740.3, 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_16153 pDONR223 0% 96.8% 95.3% None (many diffs) n/a
2 ccsbBroad304_16153 pLX_304 0% 96.8% 95.3% V5 (many diffs) n/a
3 TRCN0000469957 AATTCTCTAGAACCCTGGCGGTCA pLX_317 30.7% 69.9% 69.3% V5 (not translated due to frame shift) (many diffs) n/a
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