Transcript: Mouse XM_006501363.1

PREDICTED: Mus musculus pogo transposable element with ZNF domain (Pogz), transcript variant X3, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Pogz (229584)
Length:
6338
CDS:
301..4344

Additional Resources:

NCBI RefSeq record:
XM_006501363.1
NBCI Gene record:
Pogz (229584)

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_006501363.1, 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 TRCN0000413346 CACTAGATGTATGCATCAAAC pLKO_005 3890 CDS 100% 10.800 15.120 N Pogz n/a
2 TRCN0000098928 CGCACTCACTTGTCAGAAGAA pLKO.1 3796 CDS 100% 4.950 6.930 N Pogz n/a
3 TRCN0000427547 AGCTGACAAACTGACTATTAC pLKO_005 4809 3UTR 100% 13.200 10.560 N Pogz n/a
4 TRCN0000098929 GCCAAACAGTTAGACCAATTA pLKO.1 677 CDS 100% 13.200 10.560 N Pogz n/a
5 TRCN0000098927 CCATGAAGATACTCGGCATTT pLKO.1 1941 CDS 100% 10.800 8.640 N Pogz n/a
6 TRCN0000413542 GAGAACTTAGAGGGCAAATAT pLKO_005 3148 CDS 100% 15.000 10.500 N Pogz n/a
7 TRCN0000098925 CCTGTGAATTTGTGGGTTATT pLKO.1 4479 3UTR 100% 13.200 9.240 N Pogz n/a
8 TRCN0000437186 GTGTTACTGCTGCCCTGAAAT pLKO_005 1287 CDS 100% 13.200 9.240 N Pogz n/a
9 TRCN0000417113 AGTTTGTGCAGCGGCAGATTC pLKO_005 3419 CDS 100% 10.800 7.560 N Pogz n/a
10 TRCN0000422107 CTCTGAAGTAGATGTCCATTT pLKO_005 1911 CDS 100% 10.800 7.560 N Pogz n/a
11 TRCN0000421458 GCTATTGATGAGATCTCTTTG pLKO_005 3472 CDS 100% 10.800 7.560 N Pogz n/a
12 TRCN0000419073 TGTAGTTGAAGATTACAATTC pLKO_005 384 CDS 100% 10.800 7.560 N Pogz n/a
13 TRCN0000005708 CCCAAGTATTTGGCTTTGTTT pLKO.1 2500 CDS 100% 5.625 3.938 N POGZ n/a
14 TRCN0000218316 ATGGTTACTCAACCAGTATTG pLKO_005 499 CDS 100% 1.080 0.756 N POGZ n/a
Download CSV

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_006501363.1, 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.

Download CSV

All ORF constructs matching this transcript

Clone ID DNA Barcode Vector Sequenced %[?] Nuc. Match %[?] Prot. Match %[?] Epitope Tag Match Diffs[?] Addgene[?]
1 TRCN0000491523 TCCATTTGCTCACTTCTCCAGGCC pLX_317 7.7% 88.2% 92.7% V5 (not translated due to prior stop codon) (many diffs) n/a
2 ccsbBroadEn_11681 pDONR223 100% 19.4% 20.3% None (many diffs) n/a
3 ccsbBroad304_11681 pLX_304 0% 19.4% 20.3% V5 (many diffs) n/a
4 TRCN0000467762 TAGATAGTTCGACTCTATTATGTG pLX_317 41.5% 19.4% 20.3% V5 (many diffs) n/a
Download CSV