Transcript: Mouse XM_006500826.3

PREDICTED: Mus musculus calcium/calmodulin-dependent protein kinase II, delta (Camk2d), transcript variant X16, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Camk2d (108058)
Length:
4201
CDS:
528..2024

Additional Resources:

NCBI RefSeq record:
XM_006500826.3
NBCI Gene record:
Camk2d (108058)

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.

Clone ID Target Seq Vector PAM Seq Cut Position Cut % of CDS Length Exon On Target Score[?] Other Matching Genes Orig. Target Gene[?] Notes Addgene[?]
1 BRDN0001146112 AAAAAGCTTTCTGCTAGGGG pXPR_003 TGG 158 11% 2 -1.0585 Camk2d CAMK2D 77185
Download CSV

shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Mouse XM_006500826.3, 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 TRCN0000012478 CACGTCATCTTATCATGTATT pLKO.1 2201 3UTR 100% 13.200 18.480 N Camk2d n/a
2 TRCN0000279865 CACGTCATCTTATCATGTATT pLKO_005 2201 3UTR 100% 13.200 18.480 N Camk2d n/a
3 TRCN0000012480 GCAACTGATTGAAGCTATCAA pLKO.1 1589 CDS 100% 5.625 7.875 N Camk2d n/a
4 TRCN0000280172 GCAACTGATTGAAGCTATCAA pLKO_005 1589 CDS 100% 5.625 7.875 N Camk2d n/a
5 TRCN0000012481 GCATAGACTGTATCAGCAGAT pLKO.1 1184 CDS 100% 4.050 5.670 N Camk2d n/a
6 TRCN0000280223 GCATAGACTGTATCAGCAGAT pLKO_005 1184 CDS 100% 4.050 5.670 N Camk2d n/a
7 TRCN0000012479 GCGTAAAGATCCTTATGGAAA pLKO.1 1085 CDS 100% 4.950 3.960 N Camk2d n/a
8 TRCN0000012482 CCTGAAGCATTGGGCAACTTA pLKO.1 1668 CDS 100% 5.625 3.938 N Camk2d n/a
9 TRCN0000345113 CCTGAAGCATTGGGCAACTTA pLKO_005 1668 CDS 100% 5.625 3.938 N Camk2d n/a
10 TRCN0000000472 GCAATAAACCAATCCACACTA pLKO.1 1741 CDS 100% 4.950 3.465 N CAMK2D 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_006500826.3, 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_14565 pDONR223 0% 87.1% 95.5% None (many diffs) n/a
2 ccsbBroad304_14565 pLX_304 0% 87.1% 95.5% V5 (many diffs) n/a
3 TRCN0000481152 TAATACCTAGCTTTCCAGTGCCAA pLX_317 31.4% 87.1% 95.5% V5 (many diffs) n/a
4 ccsbBroadEn_05930 pDONR223 100% 87% 95.5% None (many diffs) n/a
5 ccsbBroad304_05930 pLX_304 0% 87% 95.5% V5 (many diffs) n/a
6 TRCN0000481368 TGGGGGTCGACGCTCATAGTTAAT pLX_317 29.9% 87% 95.5% V5 (many diffs) n/a
Download CSV