Transcript: Mouse NM_015805.3

Mus musculus ATPase, class II, type 9B (Atp9b), transcript variant 2, mRNA.

Source:
NCBI, updated 2017-04-23
Taxon:
Mus musculus (mouse)
Gene:
Atp9b (50771)
Length:
5444
CDS:
120..3527

Additional Resources:

NCBI RefSeq record:
NM_015805.3
NBCI Gene record:
Atp9b (50771)

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 NM_015805.3, 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 TRCN0000311201 TCCCATAAGTCTGCGAGTAAA pLKO_005 1376 CDS 100% 13.200 18.480 N Atp9b n/a
2 TRCN0000304963 ACGGACACTATGGACGAAATC pLKO_005 1590 CDS 100% 10.800 15.120 N Atp9b n/a
3 TRCN0000101562 GATTGATGAATTTCGACGTTT pLKO.1 710 CDS 100% 4.950 6.930 N Atp9b n/a
4 TRCN0000101563 CGATTGATGAATTTCGACGTT pLKO.1 709 CDS 100% 2.640 3.696 N Atp9b n/a
5 TRCN0000101561 GCTCACAGTTTGTACCAGCAT pLKO.1 616 CDS 100% 2.640 2.112 N Atp9b n/a
6 TRCN0000434860 GTAATAGGTGTTGTCATTTAT pLKO_005 1152 CDS 100% 15.000 10.500 N ATP9B n/a
7 TRCN0000304962 GTTGCTGTGATTGGCTAATAA pLKO_005 409 CDS 100% 15.000 10.500 N Atp9b n/a
8 TRCN0000304961 AGCTGACAAAGGCGCTATTTC pLKO_005 1252 CDS 100% 13.200 9.240 N Atp9b n/a
9 TRCN0000101560 CGTCCTCTTCAGATGCAGTTT pLKO.1 3795 3UTR 100% 4.950 3.465 N Atp9b n/a
10 TRCN0000315562 CGTCCTCTTCAGATGCAGTTT pLKO_005 3795 3UTR 100% 4.950 3.465 N Atp9b n/a
11 TRCN0000101564 GCGATAAACTGGAAACAGCTA pLKO.1 2416 CDS 100% 2.640 1.848 N Atp9b 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 NM_015805.3, 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_16162 pDONR223 0% 10.9% 11.1% None (many diffs) n/a
2 ccsbBroad304_16162 pLX_304 0% 10.9% 11.1% V5 (many diffs) n/a
3 TRCN0000481472 TCATAGCGTGATGCCATTGCCAGA pLX_317 82.2% 10.9% 11.1% V5 (many diffs) n/a
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