Transcript: Mouse XM_006513335.3

PREDICTED: Mus musculus nuclear factor I/C (Nfic), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Nfic (18029)
Length:
6545
CDS:
346..1638

Additional Resources:

NCBI RefSeq record:
XM_006513335.3
NBCI Gene record:
Nfic (18029)

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_006513335.3, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000310995 GCAACTGGACGGAAGACATAG pLKO_005 1250 CDS 100% 10.800 15.120 N Nfic n/a
2 TRCN0000310992 TGTGTGCAGCCGCACCATATT pLKO_005 805 CDS 100% 13.200 10.560 N Nfic n/a
3 TRCN0000379000 ATTAGGACGGAGGGATCCTCT pLKO_005 1634 CDS 100% 2.640 2.112 N Nfic n/a
4 TRCN0000082290 CGACTACTACACGTCGCCCAA pLKO.1 1209 CDS 100% 0.720 0.576 N Nfic n/a
5 TRCN0000082292 CGTGAAGACTTCGTACTGGCT pLKO.1 583 CDS 100% 0.660 0.528 N Nfic n/a
6 TRCN0000374154 ACAGACAGCCTCCACCTACTT pLKO_005 1464 CDS 100% 4.950 3.465 N Nfic n/a
7 TRCN0000082291 CCCTGCAAACAGTCCCTTTGT pLKO.1 1610 CDS 100% 4.950 3.465 N Nfic n/a
8 TRCN0000374212 ACGTCAGGTGTGTTCAGTGTC pLKO_005 982 CDS 100% 4.050 2.835 N Nfic n/a
9 TRCN0000082288 TAGCCGAGGTTGCCTTCCCAT pLKO.1 1680 3UTR 100% 0.880 0.616 N Nfic n/a
10 TRCN0000082289 GATGGACAAATCTCCATTCAA pLKO.1 1305 CDS 100% 0.563 0.394 N Nfic n/a
11 TRCN0000301779 GATGGACAAATCTCCATTCAA pLKO_005 1305 CDS 100% 0.563 0.394 N Nfic n/a
12 TRCN0000310997 ACCTGTACCTGGCCTACTTTG pLKO_005 848 CDS 100% 10.800 6.480 N Nfic n/a
13 TRCN0000014711 CCCGGTGAAGAAGACAGAGAT pLKO.1 1287 CDS 100% 4.950 2.970 N NFIC n/a
14 TRCN0000278027 CCCGGTGAAGAAGACAGAGAT pLKO_005 1287 CDS 100% 4.950 2.970 N NFIC 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_006513335.3, 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_06636 pDONR223 100% 84.9% 90.7% None (many diffs) n/a
2 ccsbBroad304_06636 pLX_304 0% 84.9% 90.7% V5 (many diffs) n/a
3 TRCN0000472445 TCGAGCCCCGGTTATTTTCGTCCT pLX_317 38% 84.9% 90.7% V5 (many diffs) n/a
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