Transcript: Human XM_005259920.3

PREDICTED: Homo sapiens nuclear factor I X (NFIX), transcript variant X5, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
NFIX (4784)
Length:
6410
CDS:
779..2263

Additional Resources:

NCBI RefSeq record:
XM_005259920.3
NBCI Gene record:
NFIX (4784)

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_005259920.3, 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 TRCN0000234769 TAGGCTAAGAAACGCAGTATA pLKO_005 6033 3UTR 100% 13.200 18.480 N NFIX n/a
2 TRCN0000014774 CCTGTTGATGACGTGTTCTAT pLKO.1 1619 CDS 100% 5.625 7.875 N NFIX n/a
3 TRCN0000225945 GGAATCCGGACAATCAGATAG pLKO_005 1312 CDS 100% 10.800 8.640 N Nfix n/a
4 TRCN0000234767 GGAATCCGGACAATCAGATAG pLKO_005 1312 CDS 100% 10.800 8.640 N NFIX n/a
5 TRCN0000234766 ATCTTTATCTGGCTTACTTTG pLKO_005 1281 CDS 100% 10.800 7.560 N NFIX n/a
6 TRCN0000225946 CCCAACGGGCACTTAAGTTTC pLKO_005 1370 CDS 100% 10.800 7.560 N Nfix n/a
7 TRCN0000234768 CCCAACGGGCACTTAAGTTTC pLKO_005 1370 CDS 100% 10.800 7.560 N NFIX n/a
8 TRCN0000014777 CACATCACATTGGAGTCACAA pLKO.1 1248 CDS 100% 4.950 3.465 N NFIX n/a
9 TRCN0000075349 CCGGACAATCAGATAGTTCAA pLKO.1 1317 CDS 100% 4.950 3.465 N Nfix n/a
10 TRCN0000014775 ACTGGATCTTTATCTGGCTTA pLKO.1 1276 CDS 100% 4.050 2.835 N NFIX n/a
11 TRCN0000014773 GCAGTCTCAGTCCTGGTTCCT pLKO.1 2239 CDS 100% 0.880 0.616 N NFIX n/a
12 TRCN0000014776 CCGGCTTCTCTAAAGAAGTCA pLKO.1 1712 CDS 100% 0.300 0.210 N NFIX n/a
13 TRCN0000257244 TGGACCTGGTCATGGTGATTT pLKO_005 1140 CDS 100% 13.200 7.920 N Nfix n/a
14 TRCN0000234765 ACATTGGAGTCACAATCAAAG pLKO_005 1254 CDS 100% 10.800 6.480 N NFIX n/a
Download CSV

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_005259920.3, 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.

Download CSV

All ORF constructs matching this transcript

Clone ID DNA Barcode Vector Sequenced %[?] Nuc. Match %[?] Prot. Match %[?] Epitope Tag Match Diffs[?] Addgene[?]
1 ccsbBroadEn_14713 pDONR223 62.1% 85.9% 80.9% None (many diffs) n/a
2 ccsbBroad304_14713 pLX_304 0% 85.9% 80.9% V5 (many diffs) n/a
3 TRCN0000478179 ATTAACTCACTCCAACAAGGAAAG pLX_317 37.2% 51.1% 50.4% V5 (not translated due to frame shift) (many diffs) n/a
Download CSV