Transcript: Mouse XM_006514161.2

PREDICTED: Mus musculus R3H domain containing 2 (R3hdm2), transcript variant X13, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
R3hdm2 (71750)
Length:
4054
CDS:
491..3475

Additional Resources:

NCBI RefSeq record:
XM_006514161.2
NBCI Gene record:
R3hdm2 (71750)

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_006514161.2, 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 TRCN0000236191 AGAGGTTCTCAGAACATATAA pLKO_005 1200 CDS 100% 15.000 21.000 N R3HDM2 n/a
2 TRCN0000413475 AGAGGTTCTCAGAACATATAA pLKO_005 1200 CDS 100% 15.000 21.000 N R3hdm2 n/a
3 TRCN0000424742 ACTGGTGGAAGAATCTGTAAA pLKO_005 550 CDS 100% 13.200 18.480 N R3hdm2 n/a
4 TRCN0000236192 TCATATCACCGGATGCTATTA pLKO_005 1082 CDS 100% 13.200 18.480 N R3HDM2 n/a
5 TRCN0000428570 ATTTCATCACCAGCCCAATCT pLKO_005 3774 3UTR 100% 4.950 6.930 N R3hdm2 n/a
6 TRCN0000080594 GCCACCCTTGAATAATCACAT pLKO.1 1714 CDS 100% 4.950 6.930 N R3hdm2 n/a
7 TRCN0000080595 CGGATGCTATTACATCGGGTA pLKO.1 1091 CDS 100% 2.160 3.024 N R3hdm2 n/a
8 TRCN0000080596 CCTAATTCCAACCAGCAATAT pLKO.1 2123 CDS 100% 13.200 10.560 N R3hdm2 n/a
9 TRCN0000380877 CAGTATGGACCGAGATGATAA pLKO_005 1276 CDS 100% 13.200 9.240 N R3HDM2 n/a
10 TRCN0000080593 CCTTCCCATCTTCTATCATTT pLKO.1 3667 3UTR 100% 13.200 9.240 N R3hdm2 n/a
11 TRCN0000436138 ATAACCAGACCGGCCAGAATG pLKO_005 1293 CDS 100% 10.800 7.560 N R3hdm2 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 XM_006514161.2, 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_15744 pDONR223 0% 58.5% 61.1% None (many diffs) n/a
2 ccsbBroad304_15744 pLX_304 0% 58.5% 61.1% V5 (many diffs) n/a
3 TRCN0000470723 GCTAGCGGACTCCGTGCTTCTGCT pLX_317 20% 58.5% 61.1% V5 (many diffs) n/a
4 TRCN0000469031 ATCCTAATTAAACGCCGTGTGGCG pLX_317 18.8% 58.3% 60.9% V5 (many diffs) n/a
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