Transcript: Human NM_005243.4

Homo sapiens EWS RNA binding protein 1 (EWSR1), transcript variant 2, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
EWSR1 (2130)
Length:
2400
CDS:
70..2040

Additional Resources:

NCBI RefSeq record:
NM_005243.4
NBCI Gene record:
EWSR1 (2130)

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 NM_005243.4, 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 TRCN0000353669 AGAGCGAGGTGGCTTCAATAA pLKO_005 1053 CDS 100% 13.200 18.480 N EWSR1 n/a
2 TRCN0000000036 GACCGCCTATGCAACTTCTTA pLKO.1 258 CDS 100% 5.625 4.500 N EWSR1 n/a
3 TRCN0000272741 GACCGCCTATGCAACTTCTTA pLKO_005 258 CDS 100% 5.625 4.500 N EWSR1 n/a
4 TRCN0000000037 CAAGTCAATATAGCCAACAGA pLKO.1 821 CDS 100% 3.000 2.400 N EWSR1 n/a
5 TRCN0000000034 TGCATTGACTACCAGATTTAT pLKO.1 2061 3UTR 100% 15.000 10.500 N EWSR1 n/a
6 TRCN0000272805 TGCATTGACTACCAGATTTAT pLKO_005 2061 3UTR 100% 15.000 10.500 N EWSR1 n/a
7 TRCN0000272742 ATGATCTGGCAGACTTCTTTA pLKO_005 1193 CDS 100% 13.200 9.240 N EWSR1 n/a
8 TRCN0000375872 ATGATCTGGCAGACTTCTTTA pLKO_005 1193 CDS 100% 13.200 9.240 N Ewsr1 n/a
9 TRCN0000329671 CCCAGTAGCATGGGTGTTTAT pLKO_005 883 CDS 100% 13.200 9.240 N EWSR1 n/a
10 TRCN0000375799 CCCAGTAGCATGGGTGTTTAT pLKO_005 883 CDS 100% 13.200 9.240 N Ewsr1 n/a
11 TRCN0000272806 GACAGCCTCCCACTGGTTATA pLKO_005 281 CDS 100% 13.200 9.240 N EWSR1 n/a
12 TRCN0000366874 GACAGCCTCCCACTGGTTATA pLKO_005 281 CDS 100% 13.200 9.240 N Ewsr1 n/a
13 TRCN0000342411 TACGGGCAGCAGAGTTCATTC pLKO_005 850 CDS 100% 10.800 7.560 N EWSR1 n/a
14 TRCN0000000035 CAACAAAGCTATGGAACCTAT pLKO.1 181 CDS 100% 4.950 3.465 N EWSR1 n/a
15 TRCN0000320852 TAAATGGTAGTGTGCGGAGTT pLKO_005 2207 3UTR 100% 4.050 2.835 N EWSR1 n/a
16 TRCN0000000038 GCAACAAAGCTATGGAACCTA pLKO.1 180 CDS 100% 3.000 2.100 N EWSR1 n/a
17 TRCN0000102387 GCTCCAAGTCAATATAGCCAA pLKO.1 817 CDS 100% 2.640 1.848 N Ewsr1 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_005243.4, 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_15413 pDONR223 0% 99.8% 99.8% None 974_976delGCA n/a
2 ccsbBroad304_15413 pLX_304 0% 99.8% 99.8% V5 974_976delGCA n/a
3 ccsbBroadEn_15412 pDONR223 0% 99.7% 99.8% None 480G>A;974_976delGCA n/a
4 ccsbBroad304_15412 pLX_304 0% 99.7% 99.8% V5 480G>A;974_976delGCA n/a
5 TRCN0000480501 CGAAGCACATCCAGTGACGGAGTC pLX_317 21.9% 99.7% 99.8% V5 480G>A;974_976delGCA n/a
6 ccsbBroadEn_06183 pDONR223 100% 52.2% 49.1% None (many diffs) n/a
7 ccsbBroad304_06183 pLX_304 0% 52.2% 49.1% V5 (many diffs) n/a
8 TRCN0000466288 AAGTCCGCGGCTTAGCAAAGCCGG pLX_317 39.5% 52.2% 49.1% V5 (many diffs) n/a
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