Transcript: Mouse XR_001781848.1

PREDICTED: Mus musculus nectin cell adhesion molecule 3 (Nectin3), transcript variant X5, misc_RNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Nectin3 (58998)
Length:
9925
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_001781848.1
NBCI Gene record:
Nectin3 (58998)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the exonic sequence of this non-coding 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 XR_001781848.1, 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 TRCN0000341002 ATGTAGATGGCTCCGTAATTT pLKO_005 1728 3UTR 100% 15.000 21.000 N Nectin3 n/a
2 TRCN0000109441 CCATCCATTGACTGTCAATTA pLKO.1 1096 3UTR 100% 13.200 18.480 N Nectin3 n/a
3 TRCN0000341000 GTCAATTATTCTGGCGTTTAT pLKO_005 1109 3UTR 100% 13.200 18.480 N Nectin3 n/a
4 TRCN0000341001 TCACTTAATGATGCAACAATT pLKO_005 500 3UTR 100% 13.200 18.480 N Nectin3 n/a
5 TRCN0000109444 GATGGTTTATTGGCGTCAGAT pLKO.1 1058 3UTR 100% 4.950 6.930 N Nectin3 n/a
6 TRCN0000109442 CCGTTACATTCCCACTTGGAA pLKO.1 570 3UTR 100% 3.000 4.200 N Nectin3 n/a
7 TRCN0000063343 GCGAATTACTTGTGTTGTAAA pLKO.1 847 3UTR 100% 13.200 9.240 N NECTIN3 n/a
8 TRCN0000341004 GGTGCCTTAGCTGGATCAATT pLKO_005 281 3UTR 100% 13.200 9.240 N Nectin3 n/a
9 TRCN0000341082 ACTATGTACAAGGTTTCATTC pLKO_005 1791 3UTR 100% 10.800 7.560 N Nectin3 n/a
10 TRCN0000109440 TCAATGTATCTGAGCTGCTTT pLKO.1 1934 3UTR 100% 4.950 3.465 N Nectin3 n/a
11 TRCN0000109443 CGTGGAGACTACTTTGCCAAA pLKO.1 1424 3UTR 100% 4.050 2.835 N Nectin3 n/a
12 TRCN0000044928 GCCTCCTGTCTGTTCTCTATA pLKO.1 4729 3UTR 100% 13.200 9.240 N SLC35E4 n/a
13 TRCN0000166364 CACACACACACACACACACAA pLKO.1 5321 3UTR 100% 4.950 2.475 Y KAAG1 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 XR_001781848.1, 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.

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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_11789 pDONR223 100% 9.7% None (many diffs) n/a
2 ccsbBroad304_11789 pLX_304 0% 9.7% V5 (many diffs) n/a
3 TRCN0000480602 CTCGCGGCTGGCTCAATGGGTCCT pLX_317 36% 9.7% V5 (many diffs) n/a
4 ccsbBroadEn_14099 pDONR223 100% 2.7% None (many diffs) n/a
5 ccsbBroad304_14099 pLX_304 0% 2.7% V5 (many diffs) n/a
6 TRCN0000479111 TCGATAAGTATCGTTCATATCGAC pLX_317 100% 2.7% V5 (many diffs) n/a
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