Transcript: Human NM_001317784.1

Homo sapiens SCY1 like pseudokinase 2 (SCYL2), transcript variant 2, mRNA.

Source:
NCBI, updated 2018-07-01
Taxon:
Homo sapiens (human)
Gene:
SCYL2 (55681)
Length:
5636
CDS:
286..3075

Additional Resources:

NCBI RefSeq record:
NM_001317784.1
NBCI Gene record:
SCYL2 (55681)

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 BRDN0001148262 AAGGAACCTGCGGTCCTCAT pXPR_003 GGG 1628 58% 12 0.4064 SCYL2 SCYL2 76051
2 BRDN0001145947 AGCAGTGTGAAAATGGTGCA pXPR_003 TGG 524 19% 5 0.0487 SCYL2 SCYL2 76050
3 BRDN0001146013 AGATGCAGATCAAATGACAA pXPR_003 AGG 964 35% 7 0.0339 SCYL2 SCYL2 76052
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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_001317784.1, 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 TRCN0000320714 TTGCCCAATGTTCTACTTATT pLKO_005 1453 CDS 100% 13.200 18.480 N SCYL2 n/a
2 TRCN0000007147 CCGTTATGTTTAGAGTAGAAA pLKO.1 5262 3UTR 100% 5.625 7.875 N SCYL2 n/a
3 TRCN0000007148 GCCCGTTAATACAAACCAGAA pLKO.1 2643 CDS 100% 4.050 5.670 N SCYL2 n/a
4 TRCN0000007150 GCGGTTCGTGTAAATTCATTA pLKO.1 1792 CDS 100% 13.200 10.560 N SCYL2 n/a
5 TRCN0000320713 GCGGTTCGTGTAAATTCATTA pLKO_005 1792 CDS 100% 13.200 10.560 N SCYL2 n/a
6 TRCN0000196834 GACCCAAATTTACCTTCATTG pLKO.1 940 CDS 100% 10.800 8.640 N SCYL2 n/a
7 TRCN0000194987 CAGATATGTCTGCCCTTAATA pLKO.1 2789 CDS 100% 15.000 10.500 N SCYL2 n/a
8 TRCN0000195017 CATTGCAAGCTCATCTATTAA pLKO.1 3434 3UTR 100% 15.000 10.500 N SCYL2 n/a
9 TRCN0000379601 GTGGATCTTGGTGTTATTTAA pLKO_005 3396 3UTR 100% 15.000 10.500 N SCYL2 n/a
10 TRCN0000380673 AGAGAAGTATCAGGTTATTTG pLKO_005 3571 3UTR 100% 13.200 9.240 N SCYL2 n/a
11 TRCN0000320791 ATTGCAAGCTCATCTATTAAG pLKO_005 3435 3UTR 100% 13.200 9.240 N SCYL2 n/a
12 TRCN0000350286 CCTCAAGGTTCTCCAACTATG pLKO_005 2896 CDS 100% 10.800 7.560 N SCYL2 n/a
13 TRCN0000007151 GCCCTCAGAAACCCAAAGTTA pLKO.1 2819 CDS 100% 5.625 3.938 N SCYL2 n/a
14 TRCN0000320789 GCCCTCAGAAACCCAAAGTTA pLKO_005 2819 CDS 100% 5.625 3.938 N SCYL2 n/a
15 TRCN0000007149 GCCACCAACTACTATGACCAA pLKO.1 3012 CDS 100% 2.640 1.848 N SCYL2 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_001317784.1, 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_03628 pDONR223 100% 100% 100% None n/a
2 ccsbBroad304_03628 pLX_304 0% 100% 100% V5 n/a
3 TRCN0000476215 ATAAGATACATTCAACATGCGTTG pLX_317 11.7% 100% 100% V5 n/a
4 TRCN0000488679 GCAGCCACATGCGCACTAATTAAT pLX_317 12.1% 100% 100% V5 (not translated due to prior stop codon) n/a
5 TRCN0000489230 GTATATTTGCGGGGCGTTATACAT pLX_317 14.7% 99.9% 99.8% V5 2787_2788insG n/a
6 ccsbBroadEn_15106 pDONR223 56.5% 99.7% 74.9% None (many diffs) n/a
7 ccsbBroad304_15106 pLX_304 0% 99.7% 74.9% V5 (not translated due to prior stop codon) (many diffs) n/a
8 TRCN0000475054 CACTTACGCCACCACTATGTATCA pLX_317 16.9% 99.7% 74.9% V5 (not translated due to prior stop codon) (many diffs) n/a
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