Transcript: Mouse XM_006517631.3

PREDICTED: Mus musculus polyadenylate binding protein-interacting protein 1 (Paip1), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Paip1 (218693)
Length:
2809
CDS:
228..1682

Additional Resources:

NCBI RefSeq record:
XM_006517631.3
NBCI Gene record:
Paip1 (218693)

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_006517631.3, 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 TRCN0000243811 GGCCACGTCTATCCCAAATTT pLKO_005 863 CDS 100% 15.000 21.000 N LOC651789 n/a
2 TRCN0000127832 GCTATTTGATACCAAGGGCTT pLKO.1 2236 3UTR 100% 2.160 3.024 N PAIP1 n/a
3 TRCN0000243815 AGTGGCAACTTCCGCCAATTG pLKO_005 945 CDS 100% 10.800 8.640 N LOC651789 n/a
4 TRCN0000240129 GAGTGGCAACTTCCGCCAATT pLKO_005 944 CDS 100% 10.800 8.640 N LOC645139 n/a
5 TRCN0000191215 CCCATCAGGTTATTCTTCTAA pLKO.1 650 CDS 100% 5.625 4.500 N Paip1 n/a
6 TRCN0000297531 CCCATCAGGTTATTCTTCTAA pLKO_005 650 CDS 100% 5.625 4.500 N Paip1 n/a
7 TRCN0000201571 CCACCTAGTTCACAGGATAAA pLKO.1 531 CDS 100% 13.200 9.240 N Paip1 n/a
8 TRCN0000278635 CCACCTAGTTCACAGGATAAA pLKO_005 531 CDS 100% 13.200 9.240 N Paip1 n/a
9 TRCN0000130953 CCTGTCCCATCATCTGACAAT pLKO.1 914 CDS 100% 4.950 3.465 N PAIP1 n/a
10 TRCN0000191684 GATTTAGAAGAACACAGGAAA pLKO.1 1753 3UTR 100% 4.950 3.465 N Paip1 n/a
11 TRCN0000278703 GATTTAGAAGAACACAGGAAA pLKO_005 1753 3UTR 100% 4.950 3.465 N Paip1 n/a
12 TRCN0000190566 GCAAGAAACTGTGTCAGACTT pLKO.1 1774 3UTR 100% 4.950 3.465 N Paip1 n/a
13 TRCN0000278636 GCAAGAAACTGTGTCAGACTT pLKO_005 1774 3UTR 100% 4.950 3.465 N Paip1 n/a
14 TRCN0000200709 GCAACTTCAACATACAGAGAA pLKO.1 1386 CDS 100% 4.950 2.970 N Paip1 n/a
15 TRCN0000278702 GCAACTTCAACATACAGAGAA pLKO_005 1386 CDS 100% 4.950 2.970 N Paip1 n/a
16 TRCN0000243814 CTAATCCTATGGATGACAATT pLKO_005 1168 CDS 100% 13.200 18.480 N LOC651789 n/a
17 TRCN0000342960 AGGATGGTTGTGAGGATTATC pLKO_005 688 CDS 100% 13.200 9.240 N PAIP1 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_006517631.3, 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.

Download CSV

All ORF constructs matching this transcript

Clone ID DNA Barcode Vector Sequenced %[?] Nuc. Match %[?] Prot. Match %[?] Epitope Tag Match Diffs[?] Addgene[?]
1 ccsbBroadEn_02483 pDONR223 100% 76.2% 79.2% None (many diffs) n/a
2 ccsbBroad304_02483 pLX_304 0% 76.2% 79.2% V5 (many diffs) n/a
3 TRCN0000472903 ACGGAGAACTCGCACTCCCTGGTC pLX_317 41.9% 76.2% 79.2% V5 (many diffs) n/a
Download CSV