Transcript: Mouse XM_011240594.2

PREDICTED: Mus musculus BEN domain containing 5 (Bend5), transcript variant X2, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Bend5 (67621)
Length:
1788
CDS:
639..1397

Additional Resources:

NCBI RefSeq record:
XM_011240594.2
NBCI Gene record:
Bend5 (67621)

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 Mouse XM_011240594.2, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000216111 CATCGTCAGAGAGTGTTTATA pLKO.1 1229 CDS 100% 15.000 10.500 N Bend5 n/a
2 TRCN0000413299 AGCAAATACGTCGTCCTATTA pLKO_005 956 CDS 100% 13.200 9.240 N BEND5 n/a
3 TRCN0000430020 GCGCCTGTCATGGACAAGTAT pLKO_005 987 CDS 100% 5.625 3.938 N BEND5 n/a
4 TRCN0000173161 CGAAACTACCAGCAGCAACAA pLKO.1 693 CDS 100% 4.950 3.465 N Bend5 n/a
5 TRCN0000175431 CTACAAGTTACCCAAGGAGAT pLKO.1 1074 CDS 100% 4.050 2.835 N Bend5 n/a
6 TRCN0000129287 CTAGACAATGGCAAGGTCCAT pLKO.1 1011 CDS 100% 2.640 1.848 N BEND5 n/a
7 TRCN0000131101 GTTACGGAGCACTTTCAGTGA pLKO.1 932 CDS 100% 2.640 1.848 N BEND5 n/a
8 TRCN0000175918 GAAGCAAATACGTCGTCCTAT pLKO.1 954 CDS 100% 4.950 2.970 N Bend5 n/a
9 TRCN0000173549 GCACTTTCAGTGAGGAAGCAA pLKO.1 940 CDS 100% 3.000 1.800 N Bend5 n/a
10 TRCN0000129441 GCATCGTCAGAGAGTGTTTGT pLKO.1 1228 CDS 100% 4.950 3.465 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_011240594.2, 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_14265 pDONR223 100% 94.7% 99.2% None (many diffs) n/a
2 ccsbBroad304_14265 pLX_304 0% 94.7% 99.2% V5 (many diffs) n/a
3 TRCN0000467530 TAATTGTAGAAGAGTACATATTTA pLX_317 54.1% 94.7% 99.2% V5 (many diffs) n/a
4 ccsbBroadEn_08942 pDONR223 100% 56.7% 59.6% None (many diffs) n/a
5 ccsbBroad304_08942 pLX_304 0% 56.7% 59.6% V5 (many diffs) n/a
6 TRCN0000470324 CTAGTTCACTCCTCAGTACGAGAT pLX_317 28.7% 56.7% 59.6% V5 (many diffs) n/a
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