Transcript: Mouse XR_388498.3

PREDICTED: Mus musculus apoptosis antagonizing transcription factor (Aatf), transcript variant X2, misc_RNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Aatf (56321)
Length:
2027
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_388498.3
NBCI Gene record:
Aatf (56321)

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_388498.3, 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 TRCN0000086033 CGGAGTTGTTTCGATCTCTTT pLKO.1 1867 3UTR 100% 4.950 6.930 N Aatf n/a
2 TRCN0000301992 CGGAGTTGTTTCGATCTCTTT pLKO_005 1867 3UTR 100% 4.950 6.930 N Aatf n/a
3 TRCN0000086035 GCCAAGTTCATCTGATAACGA pLKO.1 448 3UTR 100% 3.000 4.200 N Aatf n/a
4 TRCN0000311035 GTACCCAGACACGAGACATAT pLKO_005 979 3UTR 100% 0.000 0.000 N Aatf n/a
5 TRCN0000304561 GACTTGGATGAGGAGATATTT pLKO_005 1433 3UTR 100% 15.000 10.500 N Aatf n/a
6 TRCN0000304560 ATCTGGCAGTGAGTAGCATTA pLKO_005 327 3UTR 100% 10.800 7.560 N Aatf n/a
7 TRCN0000304562 TGCTGACTTCACCATCTATAG pLKO_005 1147 3UTR 100% 10.800 7.560 N Aatf n/a
8 TRCN0000086034 CCTGAGTTTCATGGCACCTAT pLKO.1 1648 3UTR 100% 4.950 3.465 N Aatf n/a
9 TRCN0000086036 GAAGATGTTGAGGAGGACTTA pLKO.1 629 3UTR 100% 4.950 3.465 N Aatf n/a
10 TRCN0000086037 GATCATATCATGATGGACAAA pLKO.1 1268 3UTR 100% 4.950 3.465 N Aatf n/a
11 TRCN0000017392 GCTCTTGGAAGGAAGGATCAA pLKO.1 790 3UTR 100% 4.950 3.465 N AATF n/a
12 TRCN0000274386 GCTCTTGGAAGGAAGGATCAA pLKO_005 790 3UTR 100% 4.950 3.465 N AATF 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_388498.3, 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_08028 pDONR223 100% 63.1% None (many diffs) n/a
2 ccsbBroad304_08028 pLX_304 0% 63.1% V5 (many diffs) n/a
3 TRCN0000468401 TCCCAACAATTTTAATTGTCCACC pLX_317 19.5% 63.1% V5 (many diffs) n/a
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