Transcript: Human XM_005253183.3

PREDICTED: Homo sapiens tripartite motif containing 5 (TRIM5), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
TRIM5 (85363)
Length:
3217
CDS:
155..1636

Additional Resources:

NCBI RefSeq record:
XM_005253183.3
NBCI Gene record:
TRIM5 (85363)

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_005253183.3, 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 TRCN0000433828 ATCAACCTAAATACGGCTACT pLKO_005 1332 CDS 100% 4.050 5.670 N TRIM5 n/a
2 TRCN0000010971 CCTGAACTCATTTGCATCATT pLKO.1 1697 3UTR 100% 5.625 4.500 N TRIM5 n/a
3 TRCN0000005898 CCTGATGCAATGTGTAATATT pLKO.1 1295 CDS 100% 15.000 10.500 N TRIM5 n/a
4 TRCN0000418175 ACCATGGATTTCTCATCTATA pLKO_005 1521 CDS 100% 13.200 9.240 N TRIM5 n/a
5 TRCN0000433813 AGAAGTCCATGCTAGACAAAG pLKO_005 285 CDS 100% 10.800 7.560 N TRIM5 n/a
6 TRCN0000419556 CAAGCTCTTGAACCTTCTTAC pLKO_005 1626 CDS 100% 10.800 7.560 N TRIM5 n/a
7 TRCN0000426450 CATTTCATGTGCTGTCATTTC pLKO_005 1075 CDS 100% 10.800 7.560 N TRIM5 n/a
8 TRCN0000005896 CCTGAGAACATACGGCCTAAT pLKO.1 344 CDS 100% 10.800 7.560 N TRIM5 n/a
9 TRCN0000417695 GACCTTGAAGAAGCCAGAAAC pLKO_005 934 CDS 100% 10.800 7.560 N TRIM5 n/a
10 TRCN0000010972 CCAGACATTTGTGAATTTCAA pLKO.1 1162 CDS 100% 5.625 3.938 N TRIM5 n/a
11 TRCN0000005897 GCACTGTCTCATTCTTCAATA pLKO.1 1494 CDS 100% 13.200 7.920 N TRIM5 n/a
12 TRCN0000155836 CCCAAAGTGCTGGGATTACAA pLKO.1 2483 3UTR 100% 5.625 2.813 Y KLHL30 n/a
13 TRCN0000141025 CCCAAAGTGCTGGGATTACTT pLKO.1 2483 3UTR 100% 5.625 2.813 Y EID2B 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_005253183.3, 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_09257 pDONR223 100% 65% 60% None (many diffs) n/a
2 ccsbBroad304_09257 pLX_304 0% 65% 60% V5 (many diffs) n/a
3 TRCN0000473045 AAAAAAGTTGCCCGATGAACTGAA pLX_317 28.1% 65% 60% V5 (many diffs) n/a
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