Transcript: Mouse XM_006510503.2

PREDICTED: Mus musculus ankyrin repeat domain 49 (Ankrd49), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Ankrd49 (56503)
Length:
2461
CDS:
377..1093

Additional Resources:

NCBI RefSeq record:
XM_006510503.2
NBCI Gene record:
Ankrd49 (56503)

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_006510503.2, 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 TRCN0000225917 CGTCTTAATGACTCTAGTAAT pLKO_005 1086 CDS 100% 13.200 18.480 N Ankrd49 n/a
2 TRCN0000086427 CTGATGAATCGTTACATCAAA pLKO.1 956 CDS 100% 0.563 0.788 N Ankrd49 n/a
3 TRCN0000062047 GTGCTTGTAAGTGGAATAATA pLKO.1 813 CDS 100% 15.000 12.000 N ANKRD49 n/a
4 TRCN0000225916 CAGCCTACAGTGGGCATATAG pLKO_005 717 CDS 100% 13.200 9.240 N Ankrd49 n/a
5 TRCN0000086423 CCTGGGTCTTTGTTCAGTTTA pLKO.1 1398 3UTR 100% 13.200 9.240 N Ankrd49 n/a
6 TRCN0000062044 CTAGGGATGAAGATGAGTATA pLKO.1 681 CDS 100% 13.200 9.240 N ANKRD49 n/a
7 TRCN0000225918 TGGATTAGGCATTACTCATAA pLKO_005 1836 3UTR 100% 13.200 9.240 N Ankrd49 n/a
8 TRCN0000225915 AGAGTCTCTGGGTAGGCAATT pLKO_005 498 CDS 100% 10.800 7.560 N Ankrd49 n/a
9 TRCN0000218895 CAGTTTAACCAGCTTGAATTG pLKO_005 440 CDS 100% 10.800 7.560 N Ankrd49 n/a
10 TRCN0000322733 TAGGGATGAAGATGAGTATAC pLKO_005 682 CDS 100% 10.800 7.560 N ANKRD49 n/a
11 TRCN0000086424 GCCTCTTTCTTACTTCAGCAT pLKO.1 842 CDS 100% 2.640 1.848 N Ankrd49 n/a
12 TRCN0000086425 CCTGATGAATCGTTACATCAA pLKO.1 955 CDS 100% 0.495 0.347 N Ankrd49 n/a
13 TRCN0000086426 GCAGAGACTACTCTCTGAGAA pLKO.1 643 CDS 100% 0.495 0.347 N Ankrd49 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_006510503.2, 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_03469 pDONR223 100% 88.2% 87.4% None (many diffs) n/a
2 ccsbBroad304_03469 pLX_304 0% 88.2% 87.4% V5 (many diffs) n/a
3 TRCN0000474445 TTCGACGTAGATCTATGGGCGTGC pLX_317 51.5% 88.2% 87.4% V5 (many diffs) n/a
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