Transcript: Human XM_017013909.1

PREDICTED: Homo sapiens tripartite motif containing 55 (TRIM55), transcript variant X9, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
TRIM55 (84675)
Length:
2302
CDS:
130..1410

Additional Resources:

NCBI RefSeq record:
XM_017013909.1
NBCI Gene record:
TRIM55 (84675)

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_017013909.1, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000034012 CCAGGTTCTGAGGATTCGAAT pLKO.1 1177 CDS 100% 4.950 3.960 N TRIM55 n/a
2 TRCN0000034010 GCTTTGTGAGAAGTTTGATTA pLKO.1 393 CDS 100% 13.200 9.240 N TRIM55 n/a
3 TRCN0000251292 TTTACCCTAGTTGGTATAAAG pLKO_005 1085 CDS 100% 13.200 9.240 N Trim55 n/a
4 TRCN0000416802 GTCACTAACAAGTGGCAAATG pLKO_005 1701 3UTR 100% 10.800 7.560 N TRIM55 n/a
5 TRCN0000034011 CAGCACAACCTGTGTAGGAAA pLKO.1 63 5UTR 100% 4.950 3.465 N TRIM55 n/a
6 TRCN0000034013 CTATGAGAACATGAACCACTT pLKO.1 672 CDS 100% 4.050 2.835 N TRIM55 n/a
7 TRCN0000425085 TTTATGGATGAGCCAGAAATG pLKO_005 565 CDS 100% 10.800 6.480 N TRIM55 n/a
8 TRCN0000093082 GAAGATGAAGATGAAGAAGAA pLKO.1 748 CDS 100% 4.950 2.475 Y Gm5518 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_017013909.1, 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_04413 pDONR223 100% 60.2% 60.2% None 0_1ins366;868_1155del n/a
2 ccsbBroad304_04413 pLX_304 0% 60.2% 60.2% V5 0_1ins366;868_1155del n/a
3 TRCN0000473514 CAGTGGGAGGCAACCACGCAGACC pLX_317 36.4% 60.2% 60.2% V5 0_1ins366;868_1155del n/a
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