Transcript: Mouse NM_144820.3

Mus musculus coiled-coil domain containing 28A (Ccdc28a), transcript variant 1, mRNA.

Source:
NCBI, updated 2017-04-29
Taxon:
Mus musculus (mouse)
Gene:
Ccdc28a (215814)
Length:
1166
CDS:
173..727

Additional Resources:

NCBI RefSeq record:
NM_144820.3
NBCI Gene record:
Ccdc28a (215814)

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_144820.3, 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 TRCN0000432749 ACAGGCTTCTGTCGGACTTAG pLKO_005 633 CDS 100% 10.800 15.120 N Ccdc28a n/a
2 TRCN0000422915 CAATGCGTCCAGCAGCTAAAG pLKO_005 709 CDS 100% 10.800 15.120 N Ccdc28a n/a
3 TRCN0000063111 GCAGGAGAAATTAGCTCGCTT pLKO.1 538 CDS 100% 2.640 3.696 N CCDC28A n/a
4 TRCN0000299229 GCAGGAGAAATTAGCTCGCTT pLKO_005 538 CDS 100% 2.640 3.696 N CCDC28A n/a
5 TRCN0000180691 GAACGATTTCCACTCTGGAAA pLKO.1 460 CDS 100% 0.495 0.693 N Ccdc28a n/a
6 TRCN0000434153 TTGAAATGCTTTGTGCTAAAC pLKO_005 947 3UTR 100% 10.800 7.560 N Ccdc28a n/a
7 TRCN0000414160 TGCAGGCGTTTGGAAATGAAT pLKO_005 483 CDS 100% 5.625 3.938 N Ccdc28a n/a
8 TRCN0000184358 GTTAGAGGAACTTCCTGAGGA pLKO.1 580 CDS 100% 2.640 1.848 N Ccdc28a n/a
9 TRCN0000063108 CGCTTGAATTTGGAGCTCTAT pLKO.1 554 CDS 100% 4.950 3.465 N CCDC28A 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_144820.3, 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_11781 pDONR223 100% 75.4% 82% None (many diffs) n/a
2 ccsbBroad304_11781 pLX_304 0% 75.4% 82% V5 (many diffs) n/a
3 TRCN0000472256 TCACCCTCTCAATAATTGGGGCGG pLX_317 75.2% 75.4% 82% V5 (many diffs) n/a
4 ccsbBroadEn_11780 pDONR223 100% 60.5% 67.3% None (many diffs) n/a
5 ccsbBroad304_11780 pLX_304 0% 60.5% 67.3% V5 (many diffs) n/a
6 TRCN0000478880 CCAGACGGCGAAGTGCTCAGCGTA pLX_317 84.8% 60.5% 67.3% V5 (many diffs) n/a
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