Transcript: Mouse XM_017319702.1

PREDICTED: Mus musculus intraflagellar transport 80 (Ift80), transcript variant X2, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Ift80 (68259)
Length:
4090
CDS:
260..2518

Additional Resources:

NCBI RefSeq record:
XM_017319702.1
NBCI Gene record:
Ift80 (68259)

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_017319702.1, 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 TRCN0000217141 CGATTCACAGTATGGTATTAC pLKO.1 1766 CDS 100% 13.200 18.480 N Ift80 n/a
2 TRCN0000190083 GCTCGCTTATCGTCAGAAGTT pLKO.1 2329 CDS 100% 4.950 6.930 N Ift80 n/a
3 TRCN0000345149 GCTCGCTTATCGTCAGAAGTT pLKO_005 2329 CDS 100% 4.950 6.930 N Ift80 n/a
4 TRCN0000191159 CCTCAGACTTAGAGTCTAAAT pLKO.1 3616 3UTR 100% 13.200 9.240 N Ift80 n/a
5 TRCN0000345212 CCTCAGACTTAGAGTCTAAAT pLKO_005 3616 3UTR 100% 13.200 9.240 N Ift80 n/a
6 TRCN0000216891 GGCTGTTGCTAATCGAGATAT pLKO.1 2053 CDS 100% 13.200 9.240 N Ift80 n/a
7 TRCN0000191678 GCTCTTAGAATTGGTGCATTA pLKO.1 3755 3UTR 100% 10.800 7.560 N Ift80 n/a
8 TRCN0000345213 GCTCTTAGAATTGGTGCATTA pLKO_005 3755 3UTR 100% 10.800 7.560 N Ift80 n/a
9 TRCN0000202253 GCAGGCAAACAGCTCATCATT pLKO.1 755 CDS 100% 5.625 3.938 N Ift80 n/a
10 TRCN0000190186 CGGCAGTGATTAGTCTCTCAT pLKO.1 3154 3UTR 100% 4.950 3.465 N Ift80 n/a
11 TRCN0000345211 CGGCAGTGATTAGTCTCTCAT pLKO_005 3154 3UTR 100% 4.950 3.465 N Ift80 n/a
12 TRCN0000202147 CCTGATGACATCTACCCGATA pLKO.1 419 CDS 100% 4.050 2.835 N Ift80 n/a
13 TRCN0000193055 CCAAGTTAGGAAGAGTGGAAA pLKO.1 537 CDS 100% 4.950 2.970 N Ift80 n/a
14 TRCN0000345148 CCAAGTTAGGAAGAGTGGAAA pLKO_005 537 CDS 100% 4.950 2.970 N Ift80 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_017319702.1, 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_03831 pDONR223 100% 85.1% 91.5% None (many diffs) n/a
2 ccsbBroad304_03831 pLX_304 0% 85.1% 91.5% V5 (many diffs) n/a
3 TRCN0000465441 CCTGACTAGTTGCCCATCCCATAG pLX_317 16.1% 85.1% 91.5% V5 (many diffs) n/a
4 ccsbBroadEn_13795 pDONR223 100% 66.1% 58.7% None (many diffs) n/a
5 ccsbBroad304_13795 pLX_304 0% 66.1% 58.7% V5 (many diffs) n/a
6 TRCN0000472584 TCCGTTTATTTAGTTGATAAGTTG pLX_317 13.3% 66.1% 58.7% V5 (many diffs) n/a
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