Transcript: Mouse XM_011243880.1

PREDICTED: Mus musculus ataxin 7-like 1 (Atxn7l1), transcript variant X9, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Atxn7l1 (380753)
Length:
2859
CDS:
117..2642

Additional Resources:

NCBI RefSeq record:
XM_011243880.1
NBCI Gene record:
Atxn7l1 (380753)

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_011243880.1, 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 TRCN0000216935 CCTTTAGTCCTCACAACAAAC pLKO.1 2686 3UTR 100% 10.800 15.120 N Atxn7l1 n/a
2 TRCN0000180160 CGACGAATCTCCAAGTAACAA pLKO.1 1943 CDS 100% 5.625 7.875 N Atxn7l1 n/a
3 TRCN0000178764 CGAGGATACTATGTGTTTGAT pLKO.1 1155 CDS 100% 5.625 7.875 N Atxn7l1 n/a
4 TRCN0000348871 TTCACCAGAGAAGATCTTAAA pLKO_005 491 CDS 100% 13.200 10.560 N Atxn7l1 n/a
5 TRCN0000376062 ATCGTCTGCAAACAGCATAAG pLKO_005 935 CDS 100% 10.800 8.640 N Atxn7l1 n/a
6 TRCN0000376123 AGCACCTCAAAGCCATTTAAA pLKO_005 222 CDS 100% 15.000 10.500 N Atxn7l1 n/a
7 TRCN0000217153 CTTCACCAGAGAAGATCTTAA pLKO.1 490 CDS 100% 13.200 9.240 N Atxn7l1 n/a
8 TRCN0000348932 TGCTGAGCACTTTACAGTAAT pLKO_005 2660 3UTR 100% 13.200 9.240 N Atxn7l1 n/a
9 TRCN0000363855 ATAGAAGGTGGGATCGATTTC pLKO_005 1174 CDS 100% 10.800 7.560 N Atxn7l1 n/a
10 TRCN0000217719 GATAGAAGGTGGGATCGATTT pLKO.1 1173 CDS 100% 10.800 7.560 N Atxn7l1 n/a
11 TRCN0000180185 CGAGAAGTTAGACTGTCAGTT pLKO.1 1076 CDS 100% 4.950 3.465 N Atxn7l1 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_011243880.1, 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_13436 pDONR223 100% 58% 57.6% None (many diffs) n/a
2 ccsbBroad304_13436 pLX_304 0% 58% 57.6% V5 (many diffs) n/a
3 TRCN0000474251 TGACTGAAATGCCAATCCTTACAA pLX_317 30.6% 58% 57.6% V5 (many diffs) n/a
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