Transcript: Mouse XM_011242121.1

PREDICTED: Mus musculus fibroblast growth factor receptor 1 (Fgfr1), transcript variant X5, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Fgfr1 (14182)
Length:
4758
CDS:
777..2972

Additional Resources:

NCBI RefSeq record:
XM_011242121.1
NBCI Gene record:
Fgfr1 (14182)

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 Mouse XM_011242121.1, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000361205 GTGACCGAGGATAACGTAATG pLKO_005 2394 CDS 100% 10.800 15.120 N Fgfr1 n/a
2 TRCN0000023298 CATATCGACTACTACAAGAAA pLKO.1 2451 CDS 100% 5.625 7.875 N Fgfr1 n/a
3 TRCN0000121183 TGGAGTTAATACCACCGACAA pLKO.1 1445 CDS 100% 4.050 5.670 N FGFR1 n/a
4 TRCN0000378435 CTGGCTGGAGTCTCCGAATAT pLKO_005 1872 CDS 100% 13.200 10.560 N Fgfr1 n/a
5 TRCN0000429862 TGAAGACTGCTGGAGTTAATA pLKO_005 1435 CDS 100% 15.000 10.500 N Fgfr1 n/a
6 TRCN0000321901 CGCTCTACCTGGAGATCATTA pLKO_005 1618 CDS 100% 13.200 9.240 N Fgfr1 n/a
7 TRCN0000023294 CTTGCCTCTAAGAAGTGTATA pLKO.1 2343 CDS 100% 13.200 9.240 N Fgfr1 n/a
8 TRCN0000312574 TGCCACCTGGAGCATCATAAT pLKO_005 1133 CDS 100% 13.200 9.240 N FGFR1 n/a
9 TRCN0000423121 AGGTTTCTGTTTAGGCCTTAA pLKO_005 3372 3UTR 100% 10.800 7.560 N Fgfr1 n/a
10 TRCN0000321902 AGTAGCTTCTTAATTCCAATA pLKO_005 3427 3UTR 100% 10.800 7.560 N Fgfr1 n/a
11 TRCN0000321968 TTAAGCCTGACCACCGAATTG pLKO_005 1093 CDS 100% 10.800 7.560 N Fgfr1 n/a
12 TRCN0000023296 CGAGGATAACGTAATGAAGAT pLKO.1 2399 CDS 100% 4.950 3.465 N Fgfr1 n/a
13 TRCN0000023297 CGCTGCCAAGACGGTGAAGTT pLKO.1 1010 CDS 100% 1.650 1.155 N Fgfr1 n/a
14 TRCN0000023295 CCTGGAGCATCATAATGGATT pLKO.1 1138 CDS 100% 4.950 2.970 N Fgfr1 n/a
15 TRCN0000321966 CCTGGAGCATCATAATGGATT pLKO_005 1138 CDS 100% 4.950 2.970 N Fgfr1 n/a
16 TRCN0000381505 GAGTTAATACCACCGACAAAG pLKO_005 1447 CDS 100% 10.800 15.120 N FGFR1 n/a
17 TRCN0000129405 GATGATGACGACGACGATGAT pLKO.1 888 CDS 100% 4.950 2.475 Y C1orf174 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_011242121.1, 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_14638 pDONR223 0% 80% 88.2% None (many diffs) n/a
2 ccsbBroad304_14638 pLX_304 0% 80% 88.2% V5 (many diffs) n/a
3 TRCN0000488713 AAGAGGCTTCCCATAGTAATAAAT pLX_317 14.1% 79.6% 87.8% V5 (not translated due to prior stop codon) (many diffs) n/a
4 TRCN0000487850 TTTCTCTGAGTTGCTCGTATCGCG pLX_317 20.3% 50.2% 55.5% V5 (not translated due to prior stop codon) (many diffs) n/a
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