Transcript: Human XM_011534740.3

PREDICTED: Homo sapiens defensin alpha 1 (DEFA1), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
DEFA1 (1667)
Length:
570
CDS:
144..449

Additional Resources:

NCBI RefSeq record:
XM_011534740.3
NBCI Gene record:
DEFA1 (1667)

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 Human XM_011534740.3, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000256383 CATCCCAGAAGTGGTTGTTTC pLKO_005 281 CDS 100% 10.800 5.400 Y DEFA1B n/a
2 TRCN0000265786 GACGAAAGCTTGGCTCCAAAG pLKO_005 312 CDS 100% 6.000 3.000 Y DEFA1B n/a
3 TRCN0000372085 TTCCCTTGCATGGGACGAAAG pLKO_005 299 CDS 100% 6.000 3.000 Y DEFA3 n/a
4 TRCN0000256384 TTGCAGGAGAACGTCGCTATG pLKO_005 385 CDS 100% 6.000 3.000 Y DEFA1B n/a
5 TRCN0000056797 ACATCCCAGAAGTGGTTGTTT pLKO.1 280 CDS 100% 5.625 2.813 Y DEFA3 n/a
6 TRCN0000056980 CATGGCCTGCTATTGCAGAAT pLKO.1 353 CDS 100% 4.950 2.475 Y DEFA1 n/a
7 TRCN0000056796 TCGCTATGGAACCTGCATCTA pLKO.1 398 CDS 100% 4.950 2.475 Y DEFA3 n/a
8 TRCN0000056981 TGCAGAATACCAGCGTGCATT pLKO.1 366 CDS 100% 4.950 2.475 Y DEFA1 n/a
9 TRCN0000265790 ACATGGCCTGCTATTGCAGAA pLKO_005 352 CDS 100% 4.050 2.025 Y DEFA1B n/a
10 TRCN0000436983 ACCTGCATCTACCAGGGAAGA pLKO_005 408 CDS 100% 4.050 2.025 Y DEFA1 n/a
11 TRCN0000265797 AGGCAAGAGCTGATGAGGTTG pLKO_005 232 CDS 100% 4.050 2.025 Y DEFA1B n/a
12 TRCN0000056978 GCCTGCTATTGCAGAATACCA pLKO.1 357 CDS 100% 3.000 1.500 Y DEFA1 n/a
13 TRCN0000372030 CAAAGCATCCAGGCTCAAGGA pLKO_005 328 CDS 100% 2.640 1.320 Y DEFA3 n/a
14 TRCN0000056793 CCAGAAGTGGTTGTTTCCCTT pLKO.1 285 CDS 100% 2.640 1.320 Y DEFA3 n/a
15 TRCN0000056795 CCAGCGTGCATTGCAGGAGAA pLKO.1 375 CDS 100% 1.350 0.675 Y DEFA3 n/a
16 TRCN0000056979 CCAGGGAAGACTCTGGGCATT pLKO.1 419 CDS 100% 1.350 0.675 Y DEFA1 n/a
17 TRCN0000056982 CGGAGCAGATTGCAGCGGACA pLKO.1 262 CDS 100% 0.000 0.000 Y DEFA1 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_011534740.3, 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 ccsbBroadEn_00434 pDONR223 100% 93% 93% None 1_21del n/a
2 ccsbBroad304_00434 pLX_304 0% 93% 93% V5 1_21del n/a
3 TRCN0000472137 CAGCTGTCGGACACTTCTATCACC pLX_317 100% 93% 93% V5 1_21del n/a
4 ccsbBroadEn_00435 pDONR223 100% 92.7% 92% None 1_21del;215C>A n/a
5 ccsbBroad304_00435 pLX_304 0% 92.7% 92% V5 1_21del;215C>A n/a
6 TRCN0000473680 ATTTTGTTGGGGTTAGCCCAGGAT pLX_317 91.3% 92.7% 92% V5 1_21del;215C>A n/a
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