Transcript: Human XM_017014753.2

PREDICTED: Homo sapiens neurotrophic receptor tyrosine kinase 2 (NTRK2), transcript variant X7, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
NTRK2 (4915)
Length:
9463
CDS:
1365..3833

Additional Resources:

NCBI RefSeq record:
XM_017014753.2
NBCI Gene record:
NTRK2 (4915)

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 BRDN0001146295 TTGGTGATGCCAAAGTACTG pXPR_003 GGG 1545 63% 15 0.6329 NTRK2 NTRK2 76469
2 BRDN0001148065 TGAATGGAATGCACCAGTGG pXPR_003 TGG 899 36% 11 0.2409 NTRK2 NTRK2 76468
3 BRDN0001146241 ACGTCACTGATAAAACCGGT pXPR_003 CGG 1278 52% 13 -0.2038 NTRK2 NTRK2 76467
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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_017014753.2, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000273160 CCTTAAGGATAACTAACATTT pLKO_005 2110 CDS 100% 13.200 18.480 N NTRK2 n/a
2 TRCN0000197207 GCGCTTCAGTGGTTCTATAAC pLKO.1 2304 CDS 100% 13.200 18.480 N NTRK2 n/a
3 TRCN0000284928 ATCGTGGCATTTCCGAGATTG pLKO_005 1518 CDS 100% 10.800 15.120 N NTRK2 n/a
4 TRCN0000195114 CCTAATATGTATTGGGATGTT pLKO.1 2040 CDS 100% 4.950 6.930 N NTRK2 n/a
5 TRCN0000002245 GCACATCAAGCGACATAACAT pLKO.1 2957 CDS 100% 5.625 4.500 N NTRK2 n/a
6 TRCN0000273162 GCACATCAAGCGACATAACAT pLKO_005 2957 CDS 100% 5.625 4.500 N NTRK2 n/a
7 TRCN0000002243 CCAACTATCACATTTCTCGAA pLKO.1 2223 CDS 100% 2.640 2.112 N NTRK2 n/a
8 TRCN0000196522 GCTATTTGAATGGTCAGATAT pLKO.1 5566 3UTR 100% 13.200 9.240 N NTRK2 n/a
9 TRCN0000273090 GCTATTTGAATGGTCAGATAT pLKO_005 5566 3UTR 100% 13.200 9.240 N NTRK2 n/a
10 TRCN0000273089 TCCTGGTGGGCAATCCATTTA pLKO_005 1795 CDS 100% 13.200 9.240 N NTRK2 n/a
11 TRCN0000196299 GACTGAGAAATCTGACAATTG pLKO.1 1639 CDS 100% 10.800 7.560 N NTRK2 n/a
12 TRCN0000002242 CCACTCCATCACATCTCCAAT pLKO.1 2802 CDS 100% 4.950 3.465 N NTRK2 n/a
13 TRCN0000195539 CCAGATTGAAAGGGAGTGATT pLKO.1 5678 3UTR 100% 4.950 3.465 N NTRK2 n/a
14 TRCN0000002246 CCTTGTTGTATTCCTGCCTTT pLKO.1 4255 3UTR 100% 4.050 2.835 N NTRK2 n/a
15 TRCN0000002244 GAGGAAGAACATCAAGGGCAT pLKO.1 3752 CDS 100% 2.160 1.512 N NTRK2 n/a
16 TRCN0000023416 GAGAGCATCATGTACAGGAAA pLKO.1 3531 CDS 100% 4.950 2.970 N LOC382761 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_017014753.2, 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_14721 pDONR223 0% 100% 100% None n/a
2 ccsbBroad304_14721 pLX_304 0% 100% 100% V5 n/a
3 TRCN0000480309 ACAATAAGTGTCCCAGTTAAGTTT pLX_317 14.3% 100% 100% V5 n/a
4 TRCN0000488063 CTCACTGTCGAGCAACCATACTGA pLX_317 13% 100% 100% V5 n/a
5 TRCN0000488161 TATCAGACTTTGGGGGGGCAAAAC pLX_317 12.7% 100% 100% V5 (not translated due to prior stop codon) n/a
6 ccsbBroadEn_01113 pDONR223 100% 57.2% 56.3% None (many diffs) n/a
7 ccsbBroad304_01113 pLX_304 0% 57.2% 56.3% V5 (many diffs) n/a
8 TRCN0000489350 CGCGGCAGTCTCCAGTCATTGATT pLX_317 37.3% 42.3% .8% V5 (not translated due to prior stop codon) 1_1417del;2462_2466delTAGGC n/a
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