Transcript: Human NM_004440.4

Homo sapiens EPH receptor A7 (EPHA7), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-09-25
Taxon:
Homo sapiens (human)
Gene:
EPHA7 (2045)
Length:
6621
CDS:
219..3215

Additional Resources:

NCBI RefSeq record:
NM_004440.4
NBCI Gene record:
EPHA7 (2045)

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 BRDN0001145766 CTGACTTAAGCCGATCCCAG pXPR_003 AGG 1281 43% 5 0.4651 EPHA7 EPHA7 77352
2 BRDN0001145253 AGCTGTCCATCAATTCGCCA pXPR_003 AGG 1873 62% 10 0.0699 EPHA7 EPHA7 77351
3 BRDN0001146678 CACCTGGTATGTTCGTATCG pXPR_003 GGG 202 7% 3 -0.0380 EPHA7 EPHA7 77353
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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 NM_004440.4, 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 TRCN0000195051 CGATGTGACCTACAGAATATT pLKO.1 1301 CDS 100% 15.000 21.000 N EPHA7 n/a
2 TRCN0000318440 CGATGTGACCTACAGAATATT pLKO_005 1301 CDS 100% 15.000 21.000 N EPHA7 n/a
3 TRCN0000196477 GAAACCAGTCATGATAGTAAT pLKO.1 2330 CDS 100% 13.200 10.560 N EPHA7 n/a
4 TRCN0000318442 GAAACCAGTCATGATAGTAAT pLKO_005 2330 CDS 100% 13.200 10.560 N EPHA7 n/a
5 TRCN0000196517 GTACTACTGCTGGATTCTAAA pLKO.1 315 CDS 100% 13.200 10.560 N EPHA7 n/a
6 TRCN0000321888 CCTAAGTGCCACCAGAATATA pLKO_005 3368 3UTR 100% 15.000 10.500 N Epha7 n/a
7 TRCN0000196713 GAACTTGTAGTAGGCCAATAA pLKO.1 2932 CDS 100% 13.200 9.240 N EPHA7 n/a
8 TRCN0000197070 GTCTACTTCAGCCTCCATTAA pLKO.1 1706 CDS 100% 13.200 9.240 N EPHA7 n/a
9 TRCN0000318441 GTCTACTTCAGCCTCCATTAA pLKO_005 1706 CDS 100% 13.200 9.240 N EPHA7 n/a
10 TRCN0000382332 AGATTTAAGAAGCACCTATAG pLKO_005 3338 3UTR 100% 10.800 7.560 N EPHA7 n/a
11 TRCN0000194873 CTTCAGTATATGCATAGAATG pLKO.1 3270 3UTR 100% 10.800 7.560 N EPHA7 n/a
12 TRCN0000006418 CGGTCATAATTGGTCTTGTTT pLKO.1 4699 3UTR 100% 5.625 3.938 N EPHA7 n/a
13 TRCN0000006421 TGGTCCATTATTGAGAACTTA pLKO.1 834 CDS 100% 5.625 3.938 N EPHA7 n/a
14 TRCN0000349550 TGGTCCATTATTGAGAACTTA pLKO_005 834 CDS 100% 5.625 3.938 N EPHA7 n/a
15 TRCN0000006419 GCTGGCTACAATTCCCTTGAA pLKO.1 3057 CDS 100% 4.950 3.465 N EPHA7 n/a
16 TRCN0000006420 CCAGTGAACAGAATCCTGTTA pLKO.1 1864 CDS 100% 0.495 0.347 N EPHA7 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 NM_004440.4, 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_06169 pDONR223 99.8% 99.9% 100% None 981G>A;1341T>C n/a
2 ccsbBroad304_06169 pLX_304 0% 99.9% 100% V5 981G>A;1341T>C n/a
3 TRCN0000488943 CTGGTATCGTCGGTGTGCGGGGAA pLX_317 11.9% 99.4% 91.2% V5 (not translated due to prior stop codon) (many diffs) n/a
4 TRCN0000489864 TTAGACTCGCTATCAGCCAGGGCC pLX_317 13.7% 99.4% 91.2% V5 (not translated due to prior stop codon) (many diffs) n/a
5 TRCN0000489138 ACCCCACAATCCATATCACTCTGT pLX_317 26.9% 40.1% 1.1% V5 (not translated due to prior stop codon) (many diffs) n/a
6 ccsbBroadEn_10803 pDONR223 100% 27.9% 27.7% None (many diffs) n/a
7 ccsbBroad304_10803 pLX_304 0% 27.9% 27.7% V5 (many diffs) n/a
8 TRCN0000468569 AAAGGCACATGGAGATCTATATTT pLX_317 51.8% 27.9% 27.7% V5 (many diffs) n/a
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