Transcript: Human XM_011527359.1

PREDICTED: Homo sapiens calpain small subunit 1 (CAPNS1), transcript variant X4, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CAPNS1 (826)
Length:
1198
CDS:
82..684

Additional Resources:

NCBI RefSeq record:
XM_011527359.1
NBCI Gene record:
CAPNS1 (826)

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_011527359.1, 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 TRCN0000003544 CGCACACATTACTCCAACATT pLKO.1 127 CDS 100% 5.625 7.875 N CAPNS1 n/a
2 TRCN0000349492 CGCACACATTACTCCAACATT pLKO_005 127 CDS 100% 5.625 7.875 N CAPNS1 n/a
3 TRCN0000003548 CGCCACAGAACTCATGAACAT pLKO.1 225 CDS 100% 4.950 6.930 N CAPNS1 n/a
4 TRCN0000318473 CGCCACAGAACTCATGAACAT pLKO_005 225 CDS 100% 4.950 6.930 N CAPNS1 n/a
5 TRCN0000003545 GCAGGCCATATACAAACAGTT pLKO.1 399 CDS 100% 4.950 3.465 N CAPNS1 n/a
6 TRCN0000318536 GCAGGCCATATACAAACAGTT pLKO_005 399 CDS 100% 4.950 3.465 N CAPNS1 n/a
7 TRCN0000003546 CTTCTCAACATCCAGGGCCCA pLKO.1 833 3UTR 100% 0.180 0.126 N CAPNS1 n/a
8 TRCN0000003547 CCATGTTCCGTGCCTTCAAAT pLKO.1 590 CDS 100% 13.200 7.920 N CAPNS1 n/a
9 TRCN0000318537 CCATGTTCCGTGCCTTCAAAT pLKO_005 590 CDS 100% 13.200 7.920 N CAPNS1 n/a
10 TRCN0000374885 GCGCCACAGAACTCATGAATA pLKO_005 224 CDS 100% 13.200 18.480 N Capns1 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_011527359.1, 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_15375 pDONR223 0% 74.3% 73.8% None 0_1ins204;3_4delGGinsCA n/a
2 ccsbBroad304_15375 pLX_304 0% 74.3% 73.8% V5 0_1ins204;3_4delGGinsCA n/a
3 TRCN0000481024 CAGAACCCATGGATGCACATGGTT pLX_317 55.4% 74.3% 73.8% V5 0_1ins204;3_4delGGinsCA n/a
4 ccsbBroadEn_15374 pDONR223 0% 74.3% 73.8% None 0_1ins204;3_4delGGinsCA n/a
5 ccsbBroad304_15374 pLX_304 0% 74.3% 73.8% V5 0_1ins204;3_4delGGinsCA n/a
6 TRCN0000472246 TCTTTAAACAGATACTCCTCAATC pLX_317 57.7% 74.3% 73.8% V5 0_1ins204;3_4delGGinsCA n/a
7 ccsbBroadEn_14567 pDONR223 90.3% 61.1% 58.8% None (many diffs) n/a
8 ccsbBroad304_14567 pLX_304 0% 61.1% 58.8% V5 (many diffs) n/a
9 TRCN0000471566 CTCATACAAGCTGCTACTGCACAA pLX_317 40.2% 61.1% 58.8% V5 (many diffs) n/a
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