Transcript: Human XM_011533161.3

PREDICTED: Homo sapiens calpain 13 (CAPN13), transcript variant X6, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CAPN13 (92291)
Length:
2933
CDS:
178..2187

Additional Resources:

NCBI RefSeq record:
XM_011533161.3
NBCI Gene record:
CAPN13 (92291)

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_011533161.3, 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 TRCN0000073784 CCATGTTTATATGTAGCGAAA pLKO.1 1154 CDS 100% 4.050 5.670 N CAPN13 n/a
2 TRCN0000073785 GCCATGTTTATATGTAGCGAA pLKO.1 1153 CDS 100% 2.640 3.696 N CAPN13 n/a
3 TRCN0000073786 CCACTCGATTTCCAAGTGATT pLKO.1 1390 CDS 100% 4.950 3.960 N CAPN13 n/a
4 TRCN0000421733 ACGAAGGATGGTCCCAAATAA pLKO_005 1208 CDS 100% 15.000 10.500 N CAPN13 n/a
5 TRCN0000433154 CACTGTCCAAAGCTCAAATAA pLKO_005 1473 CDS 100% 15.000 10.500 N CAPN13 n/a
6 TRCN0000421330 TGCTGTCACACCATCAAATTT pLKO_005 1347 CDS 100% 15.000 10.500 N CAPN13 n/a
7 TRCN0000073787 CCTGGATGATATAAGCAGATT pLKO.1 405 CDS 100% 4.950 3.465 N CAPN13 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_011533161.3, 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_09333 pDONR223 100% 99.9% 99.8% None 838G>A n/a
2 ccsbBroad304_09333 pLX_304 0% 99.9% 99.8% V5 838G>A n/a
3 TRCN0000476548 ACCATACCTTTACGAAACTGCAGC pLX_317 20.6% 99.9% 99.8% V5 838G>A n/a
4 ccsbBroadEn_09334 pDONR223 100% 99.9% 99.8% None 838G>A;948G>A n/a
5 ccsbBroad304_09334 pLX_304 0% 99.9% 99.8% V5 838G>A;948G>A n/a
6 TRCN0000481237 TTAACGTTGGTGCGGTGCTATATA pLX_317 19.7% 99.9% 99.8% V5 838G>A;948G>A n/a
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