Transcript: Mouse XM_006534769.2

PREDICTED: Mus musculus Eph receptor A5 (Epha5), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Epha5 (13839)
Length:
8717
CDS:
1314..4436

Additional Resources:

NCBI RefSeq record:
XM_006534769.2
NBCI Gene record:
Epha5 (13839)

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.

Clone ID Target Seq Vector PAM Seq Cut Position Cut % of CDS Length Exon On Target Score[?] Other Matching Genes Orig. Target Gene[?] Notes Addgene[?]
1 BRDN0001146414 TAACCATATTAGGCTTGGAT pXPR_003 GGG 1852 59% 9 0.596 Epha5 EPHA5 76676
2 BRDN0001149079 ACATTTGAGATGGCATTCCG pXPR_003 AGG 1092 35% 5 0.0907 Epha5 EPHA5 76678
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shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Mouse XM_006534769.2, 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 TRCN0000368778 TCTGTCCGTGTCTACTATAAA pLKO_005 1992 CDS 100% 15.000 21.000 N Epha5 n/a
2 TRCN0000006414 CGGCAGTATGTGTCTGTAAAT pLKO.1 2682 CDS 100% 13.200 18.480 N EPHA5 n/a
3 TRCN0000023328 CCTATATTGATCCGCACACTT pLKO.1 3268 CDS 100% 4.950 6.930 N Epha5 n/a
4 TRCN0000023327 GCTGGACAAACTGATACGAAA pLKO.1 4115 CDS 100% 4.950 6.930 N Epha5 n/a
5 TRCN0000023324 GCACTTTCATAACGGGCACAT pLKO.1 3227 CDS 100% 4.050 3.240 N Epha5 n/a
6 TRCN0000361187 GCCTTAACCTTTGAGTTTATA pLKO_005 4550 3UTR 100% 15.000 10.500 N Epha5 n/a
7 TRCN0000361188 AGTCTAAAGAGACCAGTATTA pLKO_005 2875 CDS 100% 13.200 9.240 N Epha5 n/a
8 TRCN0000023326 GCAGATTCATCACAGTTGTTA pLKO.1 2067 CDS 100% 5.625 3.938 N Epha5 n/a
9 TRCN0000006417 GCTCACACAAACTATACCTTT pLKO.1 2616 CDS 100% 4.950 3.465 N EPHA5 n/a
10 TRCN0000023325 CCTACAGATCAGTAGGTGAAT pLKO.1 4219 CDS 100% 0.495 0.347 N Epha5 n/a
11 TRCN0000230103 TTGCCCATCCAAGCCTAATAT pLKO_005 3157 CDS 100% 15.000 9.000 N EPHA5 n/a
12 TRCN0000361153 TTGCCCATCCAAGCCTAATAT pLKO_005 3157 CDS 100% 15.000 9.000 N Epha5 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_006534769.2, 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 TRCN0000488924 GGGCAGAAACGGTTTTATAGGCCT pLX_317 29.1% 36.9% .5% V5 (not translated due to prior stop codon) (many diffs) n/a
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