Transcript: Human XM_011534741.2

PREDICTED: Homo sapiens defensin alpha 3 (DEFA3), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
DEFA3 (1668)
Length:
577
CDS:
151..456

Additional Resources:

NCBI RefSeq record:
XM_011534741.2
NBCI Gene record:
DEFA3 (1668)

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_011534741.2, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000056794 CATGGACTGCTATTGCAGAAT pLKO.1 360 CDS 100% 4.950 2.970 N DEFA3 n/a
2 TRCN0000256383 CATCCCAGAAGTGGTTGTTTC pLKO_005 288 CDS 100% 10.800 5.400 Y DEFA1B n/a
3 TRCN0000265786 GACGAAAGCTTGGCTCCAAAG pLKO_005 319 CDS 100% 6.000 3.000 Y DEFA1B n/a
4 TRCN0000372085 TTCCCTTGCATGGGACGAAAG pLKO_005 306 CDS 100% 6.000 3.000 Y DEFA3 n/a
5 TRCN0000256384 TTGCAGGAGAACGTCGCTATG pLKO_005 392 CDS 100% 6.000 3.000 Y DEFA1B n/a
6 TRCN0000056797 ACATCCCAGAAGTGGTTGTTT pLKO.1 287 CDS 100% 5.625 2.813 Y DEFA3 n/a
7 TRCN0000056796 TCGCTATGGAACCTGCATCTA pLKO.1 405 CDS 100% 4.950 2.475 Y DEFA3 n/a
8 TRCN0000056981 TGCAGAATACCAGCGTGCATT pLKO.1 373 CDS 100% 4.950 2.475 Y DEFA1 n/a
9 TRCN0000436983 ACCTGCATCTACCAGGGAAGA pLKO_005 415 CDS 100% 4.050 2.025 Y DEFA1 n/a
10 TRCN0000265797 AGGCAAGAGCTGATGAGGTTG pLKO_005 239 CDS 100% 4.050 2.025 Y DEFA1B n/a
11 TRCN0000372030 CAAAGCATCCAGGCTCAAGGA pLKO_005 335 CDS 100% 2.640 1.320 Y DEFA3 n/a
12 TRCN0000056793 CCAGAAGTGGTTGTTTCCCTT pLKO.1 292 CDS 100% 2.640 1.320 Y DEFA3 n/a
13 TRCN0000056795 CCAGCGTGCATTGCAGGAGAA pLKO.1 382 CDS 100% 1.350 0.675 Y DEFA3 n/a
14 TRCN0000056979 CCAGGGAAGACTCTGGGCATT pLKO.1 426 CDS 100% 1.350 0.675 Y DEFA1 n/a
15 TRCN0000056982 CGGAGCAGATTGCAGCGGACA pLKO.1 269 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_011534741.2, 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 ccsbBroadEn_00435 pDONR223 100% 93% 93% None 1_21del n/a
2 ccsbBroad304_00435 pLX_304 0% 93% 93% V5 1_21del n/a
3 TRCN0000473680 ATTTTGTTGGGGTTAGCCCAGGAT pLX_317 91.3% 93% 93% V5 1_21del n/a
4 ccsbBroadEn_00434 pDONR223 100% 92.7% 92% None 1_21del;215A>C n/a
5 ccsbBroad304_00434 pLX_304 0% 92.7% 92% V5 1_21del;215A>C n/a
6 TRCN0000472137 CAGCTGTCGGACACTTCTATCACC pLX_317 100% 92.7% 92% V5 1_21del;215A>C n/a
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