Transcript: Mouse XM_006526683.3

PREDICTED: Mus musculus glial cell line derived neurotrophic factor family receptor alpha 1 (Gfra1), transcript variant X2, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Gfra1 (14585)
Length:
4555
CDS:
362..1768

Additional Resources:

NCBI RefSeq record:
XM_006526683.3
NBCI Gene record:
Gfra1 (14585)

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_006526683.3, 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 TRCN0000306256 AGATTCTTCCGGATCTTATTT pLKO_005 2138 3UTR 100% 15.000 21.000 N Gfra1 n/a
2 TRCN0000306314 TTACCACCGTGTGCTAATTTG pLKO_005 1535 CDS 100% 13.200 18.480 N Gfra1 n/a
3 TRCN0000079035 GCAGTCCCGTTCATATCAGAT pLKO.1 761 CDS 100% 4.950 6.930 N Gfra1 n/a
4 TRCN0000326480 GCAGTCCCGTTCATATCAGAT pLKO_005 761 CDS 100% 4.950 6.930 N Gfra1 n/a
5 TRCN0000306255 CAGATCTCGCCTTGCAGATTT pLKO_005 1129 CDS 100% 13.200 9.240 N Gfra1 n/a
6 TRCN0000079033 GCAGACTCTATCTTGTACTAA pLKO.1 2240 3UTR 100% 5.625 3.938 N Gfra1 n/a
7 TRCN0000079034 GCAGTACACATCTCTGTCTTT pLKO.1 1587 CDS 100% 4.950 3.465 N Gfra1 n/a
8 TRCN0000079037 GAAGCAGAAGTCTCTCTACAA pLKO.1 598 CDS 100% 4.950 2.970 N Gfra1 n/a
9 TRCN0000326405 GAAGCAGAAGTCTCTCTACAA pLKO_005 598 CDS 100% 4.950 2.970 N Gfra1 n/a
10 TRCN0000079036 TGTCTGTATCATTGGCAGAAA pLKO.1 1740 CDS 100% 4.950 2.970 N Gfra1 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_006526683.3, 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 TRCN0000468740 CACCCGGGCCTTACATTGGCTGAT pLX_317 16.2% 87.5% 91.8% V5 (many diffs) n/a
2 ccsbBroadEn_06270 pDONR223 100% 87.4% 91.6% None (many diffs) n/a
3 ccsbBroad304_06270 pLX_304 0% 87.4% 91.6% V5 (many diffs) n/a
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