Transcript: Human XM_011542141.3

PREDICTED: Homo sapiens BEN domain containing 5 (BEND5), transcript variant X2, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
BEND5 (79656)
Length:
4272
CDS:
2899..3909

Additional Resources:

NCBI RefSeq record:
XM_011542141.3
NBCI Gene record:
BEND5 (79656)

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_011542141.3, 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 TRCN0000413299 AGCAAATACGTCGTCCTATTA pLKO_005 3468 CDS 100% 13.200 18.480 N BEND5 n/a
2 TRCN0000175918 GAAGCAAATACGTCGTCCTAT pLKO.1 3466 CDS 100% 4.950 6.930 N Bend5 n/a
3 TRCN0000129287 CTAGACAATGGCAAGGTCCAT pLKO.1 3523 CDS 100% 2.640 3.696 N BEND5 n/a
4 TRCN0000131101 GTTACGGAGCACTTTCAGTGA pLKO.1 3444 CDS 100% 2.640 2.112 N BEND5 n/a
5 TRCN0000415677 CACGAAGAACTTGGCAGTTAT pLKO_005 3615 CDS 100% 13.200 9.240 N BEND5 n/a
6 TRCN0000421616 AGAAAGATGCAGTCCCTAAAC pLKO_005 3695 CDS 100% 10.800 7.560 N BEND5 n/a
7 TRCN0000430020 GCGCCTGTCATGGACAAGTAT pLKO_005 3499 CDS 100% 5.625 3.938 N BEND5 n/a
8 TRCN0000128364 GAGAGTGTTTGTATGACAGAA pLKO.1 3749 CDS 100% 4.950 3.465 N BEND5 n/a
9 TRCN0000129441 GCATCGTCAGAGAGTGTTTGT pLKO.1 3740 CDS 100% 4.950 3.465 N BEND5 n/a
10 TRCN0000173549 GCACTTTCAGTGAGGAAGCAA pLKO.1 3452 CDS 100% 3.000 2.100 N Bend5 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_011542141.3, 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_08942 pDONR223 100% 79.7% 79.8% None 0_1ins255;478C>A n/a
2 ccsbBroad304_08942 pLX_304 0% 79.7% 79.8% V5 0_1ins255;478C>A n/a
3 TRCN0000470324 CTAGTTCACTCCTCAGTACGAGAT pLX_317 28.7% 79.7% 79.8% V5 0_1ins255;478C>A n/a
4 ccsbBroadEn_14265 pDONR223 100% 74.8% 74.7% None 1_252del;258C>A;478C>A n/a
5 ccsbBroad304_14265 pLX_304 0% 74.8% 74.7% V5 1_252del;258C>A;478C>A n/a
6 TRCN0000467530 TAATTGTAGAAGAGTACATATTTA pLX_317 54.1% 74.8% 74.7% V5 1_252del;258C>A;478C>A n/a
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