Transcript: Mouse XR_377441.3

PREDICTED: Mus musculus 5-hydroxymethylcytosine (hmC) binding, ES cell specific (Hmces), transcript variant X2, misc_RNA.

Source:
NCBI, updated 2019-08-08
Taxon:
Mus musculus (mouse)
Gene:
Hmces (232210)
Length:
1134
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_377441.3
NBCI Gene record:
Hmces (232210)

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_377441.3, 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 TRCN0000149845 CTACCAACTGTCGTAGTGATA pLKO.1 408 3UTR 100% 4.950 3.960 N HMCES n/a
2 TRCN0000193844 CGGATAATTATTCCCATGCGA pLKO.1 329 3UTR 100% 0.750 0.600 N Hmces n/a
3 TRCN0000285664 TATCACCTTCCATCCAGTTTC pLKO_005 986 3UTR 100% 10.800 7.560 N Hmces n/a
4 TRCN0000276800 TGACAATGGCAGGGATCTTTG pLKO_005 648 3UTR 100% 10.800 7.560 N Hmces n/a
5 TRCN0000175276 CATAATGGAGAAGCAGTCATT pLKO.1 430 3UTR 100% 4.950 3.465 N Hmces n/a
6 TRCN0000173740 CCAGAGGCAACCATACTTCAT pLKO.1 532 3UTR 100% 4.950 3.465 N Hmces n/a
7 TRCN0000276801 CCAGAGGCAACCATACTTCAT pLKO_005 532 3UTR 100% 4.950 3.465 N Hmces n/a
8 TRCN0000176276 CCTGTATTCCTACAGCATCAT pLKO.1 697 3UTR 100% 0.495 0.347 N Hmces n/a
9 TRCN0000276755 CCTGTATTCCTACAGCATCAT pLKO_005 697 3UTR 100% 0.495 0.347 N Hmces 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_377441.3, 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_15931 pDONR223 0% 58.7% None (many diffs) n/a
2 ccsbBroad304_15931 pLX_304 0% 58.7% V5 (many diffs) n/a
3 TRCN0000471256 GCTACTACTCTTGACTGACGAACT pLX_317 30.4% 58.7% V5 (many diffs) n/a
4 ccsbBroadEn_08671 pDONR223 100% 58.7% None (many diffs) n/a
5 ccsbBroad304_08671 pLX_304 0% 58.7% V5 (many diffs) n/a
6 TRCN0000466236 ACTTAGTCACAGATACCTCCGCAC pLX_317 30.4% 58.7% V5 (many diffs) n/a
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