Transcript: Human XM_005271846.3

PREDICTED: Homo sapiens BMS1 ribosome biogenesis factor (BMS1), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
BMS1 (9790)
Length:
4388
CDS:
234..4082

Additional Resources:

NCBI RefSeq record:
XM_005271846.3
NBCI Gene record:
BMS1 (9790)

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_005271846.3, 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 TRCN0000148955 GAAGGGCATTTCAGGATCAAA pLKO.1 1835 CDS 100% 5.625 3.938 N BMS1 n/a
2 TRCN0000297473 GAAGGGCATTTCAGGATCAAA pLKO_005 1835 CDS 100% 5.625 3.938 N BMS1 n/a
3 TRCN0000128232 GAGGTAGACAGTTTCAAACAT pLKO.1 4118 3UTR 100% 5.625 3.938 N BMS1 n/a
4 TRCN0000128602 CAAGAGATGTCTCTACTCAAA pLKO.1 4183 3UTR 100% 4.950 3.465 N BMS1 n/a
5 TRCN0000297195 CAAGAGATGTCTCTACTCAAA pLKO_005 4183 3UTR 100% 4.950 3.465 N BMS1 n/a
6 TRCN0000129473 GCATTTGCTGACAGTGACGAT pLKO.1 1731 CDS 100% 2.640 1.848 N BMS1 n/a
7 TRCN0000278476 GCATTTGCTGACAGTGACGAT pLKO_005 1731 CDS 100% 2.640 1.848 N BMS1 n/a
8 TRCN0000149290 GCGCTGTTTAAATGAGAAGGA pLKO.1 1208 CDS 100% 2.640 1.848 N BMS1 n/a
9 TRCN0000148285 CCTCATGAAAGAAAGATCCTT pLKO.1 3837 CDS 100% 3.000 1.800 N BMS1 n/a
10 TRCN0000278484 CCTCATGAAAGAAAGATCCTT pLKO_005 3837 CDS 100% 3.000 1.800 N BMS1 n/a
11 TRCN0000146331 CCCAGTAACATCTTTGTTGAA pLKO.1 3566 CDS 100% 4.950 2.475 Y BMS1 n/a
12 TRCN0000278475 CCCAGTAACATCTTTGTTGAA pLKO_005 3566 CDS 100% 4.950 2.475 Y BMS1 n/a
13 TRCN0000168428 GAAGACCACAATGGAAGACAA pLKO.1 3111 CDS 100% 4.950 2.475 Y BMS1P20 n/a
14 TRCN0000167923 CAATGGAAGACAAAGGCTTCT pLKO.1 3119 CDS 100% 4.050 2.025 Y BMS1P20 n/a
15 TRCN0000172365 CGAAGACCACAATGGAAGACA pLKO.1 3110 CDS 100% 3.000 1.500 Y BMS1P20 n/a
16 TRCN0000168108 CACAATGGAAGACAAAGGCTT pLKO.1 3117 CDS 100% 2.640 1.320 Y BMS1P20 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_005271846.3, 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_07487 pDONR223 100% 99.9% 99.9% None 336T>C;2445C>T;3421G>A n/a
2 ccsbBroad304_07487 pLX_304 0% 99.9% 99.9% V5 336T>C;2445C>T;3421G>A n/a
3 TRCN0000480950 GACCCCTCCATCATAGCGCCCGAA pLX_317 10.1% 99.9% 99.9% V5 336T>C;2445C>T;3421G>A n/a
4 ccsbBroadEn_10370 pDONR223 100% 7.1% 6% None (many diffs) n/a
5 ccsbBroad304_10370 pLX_304 0% 7.1% 6% V5 (many diffs) n/a
6 TRCN0000467881 ATCACAGGCGGCGTAGCCGACCCG pLX_317 71.9% 7.1% 6% V5 (many diffs) n/a
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