Transcript: Human XM_011540973.1

PREDICTED: Homo sapiens EPH receptor A8 (EPHA8), transcript variant X4, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
EPHA8 (2046)
Length:
4795
CDS:
150..2942

Additional Resources:

NCBI RefSeq record:
XM_011540973.1
NBCI Gene record:
EPHA8 (2046)

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 BRDN0001146550 CGTCAGGCAGATCCAGACAA pXPR_003 TGG 1405 50% 7 0.43 EPHA8 EPHA8 76527
2 BRDN0001146734 CCCAGAGCCCCAGTTCTATG pXPR_003 CGG 1603 57% 9 -0.2995 EPHA8 EPHA8 76529
3 BRDN0001146924 CCTCAAAATCGACACCATTG pXPR_003 CGG 217 8% 2 -0.3008 EPHA8 EPHA8 76528
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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 Human XM_011540973.1, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000001348 CTATAAGAAGTGCCCTGCCAT pLKO.1 524 CDS 100% 2.640 3.696 N EPHA8 n/a
2 TRCN0000195445 CAGTGTGAATGGGACATCAGT pLKO.1 935 CDS 100% 3.000 2.400 N EPHA8 n/a
3 TRCN0000197138 GCATGGACGTGTGCATGTTAT pLKO.1 3344 3UTR 100% 13.200 9.240 N EPHA8 n/a
4 TRCN0000218057 TCTATGCTGAGATCAAGTTTA pLKO_005 214 CDS 100% 13.200 9.240 N EPHA8 n/a
5 TRCN0000230030 TCTCTCTCCGCATCTACTATA pLKO_005 508 CDS 100% 13.200 9.240 N EPHA8 n/a
6 TRCN0000196913 GAGCGTGTGCTTATCCGTTAA pLKO.1 3365 3UTR 100% 10.800 7.560 N EPHA8 n/a
7 TRCN0000230033 GAGCGTGTGCTTATCCGTTAA pLKO_005 3365 3UTR 100% 10.800 7.560 N EPHA8 n/a
8 TRCN0000230031 GCAGTGACATCACCTACAATG pLKO_005 994 CDS 100% 10.800 7.560 N EPHA8 n/a
9 TRCN0000367486 AGCATGGACGTGTGCATGTTA pLKO_005 3343 3UTR 100% 5.625 3.938 N EPHA8 n/a
10 TRCN0000195591 CGCAGTGACATCACCTACAAT pLKO.1 993 CDS 100% 5.625 3.938 N EPHA8 n/a
11 TRCN0000356087 ACCAGGTTTGCAACGTCATGA pLKO_005 133 5UTR 100% 4.950 3.465 N EPHA8 n/a
12 TRCN0000001345 CGAGCTGTTCTTCCTTCCTAT pLKO.1 4520 3UTR 100% 4.950 3.465 N EPHA8 n/a
13 TRCN0000001346 GACGAGGAGAAGATGCACTAT pLKO.1 1656 CDS 100% 4.950 3.465 N EPHA8 n/a
14 TRCN0000196492 GAGTATGAGATCAAGTACTAC pLKO.1 1338 CDS 100% 4.950 3.465 N EPHA8 n/a
15 TRCN0000230032 GAGTATGAGATCAAGTACTAC pLKO_005 1338 CDS 100% 4.950 3.465 N EPHA8 n/a
16 TRCN0000356088 GCAATTCGACCATCCCAACAT pLKO_005 1991 CDS 100% 4.950 3.465 N EPHA8 n/a
17 TRCN0000356065 GGAGAAGATGCACTATCAGAA pLKO_005 1661 CDS 100% 4.950 3.465 N EPHA8 n/a
18 TRCN0000377266 TTCTGGATCGAGGCCGTCAAT pLKO_005 1152 CDS 100% 4.950 3.465 N EPHA8 n/a
19 TRCN0000001349 CAGATTGTCAGTGTCCTCGAT pLKO.1 2583 CDS 100% 2.640 1.848 N EPHA8 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_011540973.1, 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_06170 pDONR223 100% 40.3% 36.6% None (many diffs) n/a
2 ccsbBroad304_06170 pLX_304 0% 40.3% 36.6% V5 (many diffs) n/a
3 TRCN0000470862 CCTTATTTCTCCCTATTGCCCGTC pLX_317 27.7% 40.3% 36.6% V5 (many diffs) n/a
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