Transcript: Human XM_017013380.1

PREDICTED: Homo sapiens nuclear receptor binding protein 2 (NRBP2), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
NRBP2 (340371)
Length:
3678
CDS:
141..1961

Additional Resources:

NCBI RefSeq record:
XM_017013380.1
NBCI Gene record:
NRBP2 (340371)

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.

Clone ID Target Seq Vector PAM Seq Cut Position Cut % of CDS Length Exon On Target Score[?] Other Matching Genes Orig. Target Gene[?] Notes Addgene[?]
1 BRDN0001145030 AGTGCACCTCGAAGAGCACG pXPR_003 CGG 914 50% 11 0.912 NRBP2 NRBP2 76455
2 BRDN0001147825 ACTGGAAATCCAGACCAATG pXPR_003 GGG 769 42% 10 0.8987 NRBP2 NRBP2 76453
3 BRDN0001147090 GGTTCCCGTGGATGATTGGG pXPR_003 GGG 509 28% 6 0.8061 NRBP2 NRBP2 76454
4 BRDN0001146685 TAAACCAAGGGAACATGCCA pXPR_003 GGG 147 8% 2 0.6091 NRBP2 NRBP2 76456
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shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human XM_017013380.1, 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 TRCN0000197184 GTACTCGGAAGTCTCCTTCAT pLKO.1 1217 CDS 100% 4.950 6.930 N NRBP2 n/a
2 TRCN0000021401 CTACCCACTGATGAACTTTGC pLKO.1 1277 CDS 100% 4.050 5.670 N NRBP2 n/a
3 TRCN0000021402 ATGAACTTTGCAGCCACTCGA pLKO.1 1287 CDS 100% 2.640 3.696 N NRBP2 n/a
4 TRCN0000196994 GCGCATTCATGCCTTTCTAAA pLKO.1 2754 3UTR 100% 13.200 10.560 N NRBP2 n/a
5 TRCN0000021399 CCAGCCAGATAATACATGATA pLKO.1 3217 3UTR 100% 5.625 4.500 N NRBP2 n/a
6 TRCN0000195525 CCCTAAGGACTCATGAGATTA pLKO.1 3188 3UTR 100% 13.200 9.240 N NRBP2 n/a
7 TRCN0000021400 CCTTCATGGAGCTGGACAAAT pLKO.1 1231 CDS 100% 13.200 9.240 N NRBP2 n/a
8 TRCN0000199700 CTTCCTCAAGTACCGTGGGAC pLKO.1 1707 CDS 100% 0.720 0.504 N NRBP2 n/a
9 TRCN0000021403 ATGTCAGGAATGGAATCTACC pLKO.1 1261 CDS 100% 4.050 2.430 N NRBP2 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_017013380.1, 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_13598 pDONR223 100% 42.5% 36% None 1_729del;1382_1472del;1595_1818del n/a
2 ccsbBroad304_13598 pLX_304 0% 42.5% 36% V5 1_729del;1382_1472del;1595_1818del n/a
3 TRCN0000489360 GATGATTGTCGATGCACTCTCCTC pLX_317 49.9% 42.5% 36% V5 (not translated due to prior stop codon) 1_729del;1382_1472del;1595_1818del n/a
4 TRCN0000468247 CTGCTTTATCTCTTCTTTGGTTAA pLX_317 28.7% 42.1% 35.2% V5 (many diffs) n/a
5 ccsbBroadEn_15306 pDONR223 100% 42% 38.2% None (many diffs) n/a
6 ccsbBroad304_15306 pLX_304 0% 42% 38.2% V5 (not translated due to frame shift) (many diffs) n/a
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