Transcript: Human XM_017022254.2

PREDICTED: Homo sapiens neurotrophic receptor tyrosine kinase 3 (NTRK3), transcript variant X27, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
NTRK3 (4916)
Length:
20382
CDS:
644..3196

Additional Resources:

NCBI RefSeq record:
XM_017022254.2
NBCI Gene record:
NTRK3 (4916)

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 BRDN0001147858 CATGTGGAATACTACCAAGA pXPR_003 GGG 1061 42% 8 0.7702 NTRK3 NTRK3 76181
2 BRDN0001145045 TCATGCCATCAACTTGACGC pXPR_003 TGG 805 32% 7 0.0587 NTRK3 NTRK3 76179
3 BRDN0001145325 CGTCAACCTGACCGTACGAG pXPR_003 AGG 664 26% 6 -0.4711 NTRK3 NTRK3 76180
Download CSV

shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human XM_017022254.2, 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 TRCN0000219677 ATGTCTACAGCACGGATTATT pLKO.1 2751 CDS 100% 15.000 21.000 N NTRK3 n/a
2 TRCN0000379993 ATATGGTCGACGGTCCAAATT pLKO_005 2008 CDS 100% 13.200 18.480 N NTRK3 n/a
3 TRCN0000002313 CACGGACATCTCAAGGAATAT pLKO.1 862 CDS 100% 13.200 18.480 N NTRK3 n/a
4 TRCN0000338261 CACGGACATCTCAAGGAATAT pLKO_005 862 CDS 100% 13.200 18.480 N NTRK3 n/a
5 TRCN0000381538 ACGCTGAGTCTTCGGGAATTG pLKO_005 1088 CDS 100% 10.800 8.640 N NTRK3 n/a
6 TRCN0000002311 GCACATTAAGAGGAGAGACAT pLKO.1 2236 CDS 100% 4.950 3.960 N NTRK3 n/a
7 TRCN0000382153 ACGTATGTGCAGCACATTAAG pLKO_005 2225 CDS 100% 13.200 9.240 N NTRK3 n/a
8 TRCN0000023514 GCAGCAAGACTGAGATCAATT pLKO.1 756 CDS 100% 13.200 9.240 N Ntrk3 n/a
9 TRCN0000379636 GCAGCAAGACTGAGATCAATT pLKO_005 756 CDS 100% 13.200 9.240 N NTRK3 n/a
10 TRCN0000415150 TGAAGCATGGAGACCTGAATA pLKO_005 2502 CDS 100% 13.200 9.240 N NTRK3 n/a
11 TRCN0000368951 AGCAATGGGAACGCCAGTATC pLKO_005 836 CDS 100% 10.800 7.560 N NTRK3 n/a
12 TRCN0000361391 AGTGTAGTTTCTGGCGGATTT pLKO_005 669 CDS 100% 10.800 7.560 N Ntrk3 n/a
13 TRCN0000195281 CGGATAACTTTATCTTGTTTG pLKO.1 1854 CDS 100% 10.800 7.560 N NTRK3 n/a
14 TRCN0000002309 CACTACAACAATGGCAACTAT pLKO.1 1751 CDS 100% 5.625 3.938 N NTRK3 n/a
15 TRCN0000194821 CCAATCTACCTGGACATTCTT pLKO.1 3170 CDS 100% 5.625 3.938 N NTRK3 n/a
16 TRCN0000338262 CCAATCTACCTGGACATTCTT pLKO_005 3170 CDS 100% 5.625 3.938 N NTRK3 n/a
17 TRCN0000219678 TGGTGGCTGGTGGTCATGAAT pLKO.1 3197 CDS 100% 5.625 3.938 N NTRK3 n/a
18 TRCN0000002310 CAAAGAGGTGTACGATGTCAT pLKO.1 3064 CDS 100% 4.950 3.465 N NTRK3 n/a
19 TRCN0000195282 CCAATGTTCATGCCATCAACT pLKO.1 1425 CDS 100% 4.950 3.465 N NTRK3 n/a
20 TRCN0000002312 TCATACTCTGTTGCCTCCTCT pLKO.1 3218 3UTR 100% 2.640 1.848 N NTRK3 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_017022254.2, 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.

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_14722 pDONR223 0% 97.7% 97.2% None (many diffs) n/a
2 ccsbBroad304_14722 pLX_304 0% 97.7% 97.2% V5 (many diffs) n/a
3 TRCN0000472061 TCCTAGCAGCACTATGGTACACGG pLX_317 17.1% 97.7% 97.2% V5 (many diffs) n/a
4 TRCN0000489478 CACGGAAAAAGCCGCCAGTGATGG pLX_317 16.1% 97% 97% V5 678C>T;2134_2208del n/a
5 TRCN0000488840 TCGATGGTACGGTTACAATCTGAG pLX_317 13.2% 97% 97% V5 (not translated due to prior stop codon) 678C>T;2134_2208del n/a
6 TRCN0000491535 CCGAAACTCTCCGAGAGGCGTCAT pLX_317 12.8% 96.9% 96.9% V5 678C>T;2134_2208del;2550_2551insG n/a
7 ccsbBroadEn_06660 pDONR223 100% 69% 63.5% None (many diffs) n/a
8 ccsbBroad304_06660 pLX_304 0% 69% 63.5% V5 (many diffs) n/a
9 TRCN0000466614 AAAGTCTCTCTGTCTGGGCCCTCG pLX_317 19.7% 69% 63.5% V5 (many diffs) n/a
10 TRCN0000492346 TATCGCCAAACGCTGCGCAATAAT pLX_317 23.2% 43.3% .3% V5 (not translated due to prior stop codon) 1_1366del;2134_2208del;2550_2551insTAGAAGCTT n/a
Download CSV