Transcript: Human XM_011541514.3

PREDICTED: Homo sapiens nuclear factor I A (NFIA), transcript variant X2, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
NFIA (4774)
Length:
9397
CDS:
370..1929

Additional Resources:

NCBI RefSeq record:
XM_011541514.3
NBCI Gene record:
NFIA (4774)

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_011541514.3, 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 TRCN0000016231 CTGTTAAGGAACTCGATTTAT pLKO.1 857 CDS 100% 15.000 21.000 N NFIA n/a
2 TRCN0000229660 CTGTTAAGGAACTCGATTTAT pLKO_005 857 CDS 100% 15.000 21.000 N NFIA n/a
3 TRCN0000321160 TGATGGCGAGCGCCTTGTAAA pLKO_005 780 CDS 100% 13.200 18.480 N Nfia n/a
4 TRCN0000229663 TTCCCGACATCACCCATTATC pLKO_005 1507 CDS 100% 13.200 18.480 N NFIA n/a
5 TRCN0000016230 GACCCGAATATCGAGAGGATT pLKO.1 596 CDS 100% 4.950 6.930 N NFIA n/a
6 TRCN0000012084 GCAAACCGATTCGTCAGTGTT pLKO.1 1846 CDS 100% 4.950 6.930 N Nfia n/a
7 TRCN0000016228 GCGCAGTTACAACTTCACTAT pLKO.1 2010 3UTR 100% 4.950 6.930 N NFIA n/a
8 TRCN0000016229 GCCGTGAAGGATGAATTGCTA pLKO.1 508 CDS 100% 3.000 4.200 N NFIA n/a
9 TRCN0000218979 GTAGCTGAGATCTGCAATATA pLKO_005 2393 3UTR 100% 15.000 10.500 N NFIA n/a
10 TRCN0000229662 GGAGCAATGAGGAGGTCTTTA pLKO_005 1123 CDS 100% 13.200 9.240 N NFIA n/a
11 TRCN0000016232 GAAGTCGGAGAAGTCTGGTTT pLKO.1 1317 CDS 100% 4.950 3.465 N NFIA n/a
12 TRCN0000229661 TGCAGGAACTGGCCCAAATTT pLKO_005 1056 CDS 100% 15.000 9.000 N NFIA n/a
13 TRCN0000039341 CCCACAGGAATATGCAAGATT pLKO.1 6279 3UTR 100% 5.625 2.813 Y Kat6b n/a
14 TRCN0000287461 CCCACAGGAATATGCAAGATT pLKO_005 6279 3UTR 100% 5.625 2.813 Y Kat6b 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_011541514.3, 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_14712 pDONR223 69.5% 89.5% 88.9% None (many diffs) n/a
2 ccsbBroad304_14712 pLX_304 0% 89.5% 88.9% V5 (many diffs) n/a
3 TRCN0000473576 GCGACGAGCCTGGGTGGATCACAA pLX_317 53.8% 62.6% 62.4% V5 (not translated due to frame shift) (many diffs) n/a
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