Transcript: Mouse XR_001785478.1

PREDICTED: Mus musculus fibroblast growth factor receptor 2 (Fgfr2), transcript variant X16, misc_RNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Fgfr2 (14183)
Length:
6762
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_001785478.1
NBCI Gene record:
Fgfr2 (14183)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the exonic sequence of this non-coding 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 XR_001785478.1, 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 TRCN0000219680 TGGAGTACTCCTATGACATTA pLKO.1 4447 3UTR 100% 13.200 18.480 N FGFR2 n/a
2 TRCN0000257217 TGGAGTACTCCTATGACATTA pLKO_005 4447 3UTR 100% 13.200 18.480 N FGFR2 n/a
3 TRCN0000321950 TGGAGTACTCCTATGACATTA pLKO_005 4447 3UTR 100% 13.200 18.480 N Fgfr2 n/a
4 TRCN0000023714 CGGGTAATTCTATCGGGATAT pLKO.1 3733 3UTR 100% 10.800 15.120 N Fgfr2 n/a
5 TRCN0000321969 CGGGTAATTCTATCGGGATAT pLKO_005 3733 3UTR 100% 10.800 15.120 N Fgfr2 n/a
6 TRCN0000231052 GCCGTGATCAGTTGGACTAAG pLKO_005 1562 3UTR 100% 10.800 15.120 N FGFR2 n/a
7 TRCN0000196699 GTTCTCTATATTCGGAATGTA pLKO.1 3678 3UTR 100% 5.625 7.875 N FGFR2 n/a
8 TRCN0000023717 CCTCTCTACGTCATAGTTGAA pLKO.1 4371 3UTR 100% 4.950 6.930 N Fgfr2 n/a
9 TRCN0000023638 CGGGCAAGTAGTCATGGCTGA pLKO.1 4172 3UTR 100% 0.720 1.008 N LOC381968 n/a
10 TRCN0000000367 GCCACCAACCAAATACCAAAT pLKO.1 1471 3UTR 100% 10.800 8.640 N FGFR2 n/a
11 TRCN0000231053 ATATGGATCAGAGGAGTAAAT pLKO_005 5358 3UTR 100% 13.200 9.240 N FGFR2 n/a
12 TRCN0000321949 ATATGGATCAGAGGAGTAAAT pLKO_005 5358 3UTR 100% 13.200 9.240 N Fgfr2 n/a
13 TRCN0000321970 ATTATCTGGAGATAGCTATTT pLKO_005 3823 3UTR 100% 13.200 9.240 N Fgfr2 n/a
14 TRCN0000321906 CATCGCATTGGAGGCTATAAG pLKO_005 1964 3UTR 100% 13.200 9.240 N Fgfr2 n/a
15 TRCN0000023716 GCATCGCATTGGAGGCTATAA pLKO.1 1963 3UTR 100% 13.200 9.240 N Fgfr2 n/a
16 TRCN0000023715 GCCAGGGATATCAACAACATA pLKO.1 4638 3UTR 100% 5.625 3.938 N Fgfr2 n/a
17 TRCN0000194830 CAGTGAAACTTGGTACTTCAT pLKO.1 1702 3UTR 100% 4.950 3.465 N FGFR2 n/a
18 TRCN0000000366 GCACACACTTACAGAGCACAA pLKO.1 5601 3UTR 100% 4.050 2.835 N FGFR2 n/a
19 TRCN0000023637 CGAGTATGAGTTGCCAGAGGA pLKO.1 4088 3UTR 100% 2.640 1.848 N LOC381968 n/a
20 TRCN0000023718 GCCATCTCATCTGGAGATGAT pLKO.1 1739 3UTR 100% 0.495 0.347 N Fgfr2 n/a
21 TRCN0000000369 CCCAACAATAGGACAGTGCTT pLKO.1 1601 3UTR 100% 2.640 1.584 N FGFR2 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 XR_001785478.1, 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 TRCN0000491431 CTCACCCCTTCATGGGAGAACTCG pLX_317 12.9% 34.5% V5 (not translated due to prior stop codon) (many diffs) n/a
2 TRCN0000492076 ACTGTTTAAGGCTAGTTTATGATC pLX_317 16.5% 33.3% V5 (many diffs) n/a
3 TRCN0000491520 TTTCTTCGCCTCATCTCCCTTGTC pLX_317 7.9% 33.3% V5 (not translated due to prior stop codon) (many diffs) n/a
4 TRCN0000489718 CGCCACTACCTCAGAATTGCTGAT pLX_317 16.4% 33.3% V5 (many diffs) n/a
5 TRCN0000488178 TTTGGGGCAGTGGTGCCCTACGGC pLX_317 9.8% 33.3% V5 (not translated due to prior stop codon) (many diffs) n/a
6 ccsbBroadEn_14640 pDONR223 0% 33.2% None (many diffs) n/a
7 ccsbBroad304_14640 pLX_304 0% 33.2% V5 (many diffs) n/a
8 TRCN0000465402 CTAGCGAGATACATAGTTCGCTAC pLX_317 9.6% 33.2% V5 (many diffs) n/a
9 ccsbBroadEn_06211 pDONR223 100% 28.7% None (many diffs) n/a
10 ccsbBroad304_06211 pLX_304 0% 28.7% V5 (many diffs) n/a
11 TRCN0000487708 AAGTTCAAGTCTTTTTGTAGGCCG pLX_317 15.7% 15.5% V5 (not translated due to prior stop codon) (many diffs) n/a
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