Transcript: Mouse XM_006516233.2

PREDICTED: Mus musculus forkhead box N3 (Foxn3), transcript variant X3, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Foxn3 (71375)
Length:
7744
CDS:
119..1558

Additional Resources:

NCBI RefSeq record:
XM_006516233.2
NBCI Gene record:
Foxn3 (71375)

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_006516233.2, 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 TRCN0000086631 CCGTTACCAATCACTCCCATT pLKO.1 971 CDS 100% 4.050 3.240 N Foxn3 n/a
2 TRCN0000327479 CCGTTACCAATCACTCCCATT pLKO_005 971 CDS 100% 4.050 3.240 N Foxn3 n/a
3 TRCN0000086632 CTCCTTTAGCTGCCTCATATT pLKO.1 469 CDS 100% 13.200 9.240 N Foxn3 n/a
4 TRCN0000327401 CTCCTTTAGCTGCCTCATATT pLKO_005 469 CDS 100% 13.200 9.240 N Foxn3 n/a
5 TRCN0000086628 GCACACAAACACACAACTTAA pLKO.1 2420 3UTR 100% 13.200 9.240 N Foxn3 n/a
6 TRCN0000327400 GCACACAAACACACAACTTAA pLKO_005 2420 3UTR 100% 13.200 9.240 N Foxn3 n/a
7 TRCN0000306701 AGTATTGGGAAAGGGTCATTG pLKO_005 662 CDS 100% 10.800 7.560 N Foxn3 n/a
8 TRCN0000086630 TCTTAGAACATTTCCCGTATT pLKO.1 549 CDS 100% 10.800 7.560 N Foxn3 n/a
9 TRCN0000086629 CAGTACCTTCTTCAAGAGAAA pLKO.1 802 CDS 100% 4.950 3.465 N Foxn3 n/a
10 TRCN0000013705 CCCTGAGATACAAGCAGGTTT pLKO.1 886 CDS 100% 4.950 2.970 N FOXN3 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_006516233.2, 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_00302 pDONR223 100% 85.7% 88.9% None (many diffs) n/a
2 ccsbBroad304_00302 pLX_304 0% 85.7% 88.9% V5 (many diffs) n/a
3 TRCN0000478836 AGGGATCATCGGATTTCCATGCCT pLX_317 25.7% 85.7% 88.9% V5 (many diffs) n/a
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