Transcript: Human NM_001288839.1

Homo sapiens VRK serine/threonine kinase 2 (VRK2), transcript variant 7, mRNA.

Source:
NCBI, updated 2019-09-25
Taxon:
Homo sapiens (human)
Gene:
VRK2 (7444)
Length:
1916
CDS:
517..1689

Additional Resources:

NCBI RefSeq record:
NM_001288839.1
NBCI Gene record:
VRK2 (7444)

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 BRDN0001146649 ACCAGCTTGGATGCCCACAA pXPR_003 GGG 311 27% 7 0.9139 VRK2 VRK2 77232
2 BRDN0001145054 CCTGCAATTAGGTATCCGAA pXPR_003 TGG 91 8% 5 0.5102 VRK2 VRK2 77234
3 BRDN0001145671 GGTCCTAAAGGTATTCCATG pXPR_003 AGG 594 51% 10 0.1355 VRK2 VRK2 77233
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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_001288839.1, 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 TRCN0000276685 GTCCCAATGGGAACCACAAAC pLKO_005 743 CDS 100% 10.800 15.120 N Vrk2 n/a
2 TRCN0000010205 GCACACAATAGGTTAATCGAA pLKO.1 1225 CDS 100% 3.000 4.200 N VRK2 n/a
3 TRCN0000010208 ACCACAAACAGTATCAGGAAA pLKO.1 755 CDS 100% 4.950 3.960 N VRK2 n/a
4 TRCN0000196878 GCTCATAGTTTAGCATATGAT pLKO.1 1045 CDS 100% 0.000 0.000 N VRK2 n/a
5 TRCN0000196902 GATCTCCATCTTGGTATAAAT pLKO.1 1499 CDS 100% 15.000 10.500 N VRK2 n/a
6 TRCN0000010207 GTTGGATGTACTGGAATATAT pLKO.1 612 CDS 100% 15.000 10.500 N VRK2 n/a
7 TRCN0000342337 GTTGGATGTACTGGAATATAT pLKO_005 612 CDS 100% 15.000 10.500 N VRK2 n/a
8 TRCN0000195058 CTGGAGGATTTGGATTGATAT pLKO.1 342 5UTR 100% 13.200 9.240 N VRK2 n/a
9 TRCN0000342262 CTGGAGGATTTGGATTGATAT pLKO_005 342 5UTR 100% 13.200 9.240 N VRK2 n/a
10 TRCN0000195264 CACCGAAATGTTGTATTCTTA pLKO.1 1738 3UTR 100% 5.625 3.938 N VRK2 n/a
11 TRCN0000197178 GCTCTTCACCGAAATGTTGTA pLKO.1 1732 3UTR 100% 4.950 3.465 N VRK2 n/a
12 TRCN0000010204 GCCAAACTATCAAGCCCTCAA pLKO.1 1071 CDS 100% 4.050 2.835 N VRK2 n/a
13 TRCN0000342338 GCCAAACTATCAAGCCCTCAA pLKO_005 1071 CDS 100% 4.050 2.835 N VRK2 n/a
14 TRCN0000195115 CTTATTTCAGTGTTTCCTTCC pLKO.1 1755 3UTR 100% 2.250 1.575 N VRK2 n/a
15 TRCN0000199398 CAGGCCAGAATGGTACCTTTA pLKO.1 557 CDS 100% 0.000 0.000 N VRK2 n/a
16 TRCN0000010206 GGGAAGAAGTTACAGATTTAT pLKO.1 498 5UTR 100% 15.000 9.000 N VRK2 n/a
17 TRCN0000342336 GGGAAGAAGTTACAGATTTAT pLKO_005 498 5UTR 100% 15.000 9.000 N VRK2 n/a
18 TRCN0000276682 ATAATGGGACAATAGAGTTTA pLKO_005 791 CDS 100% 13.200 7.920 N Vrk2 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_001288839.1, 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 TRCN0000489903 TCAGATCACACCCTGTTTGCAGGA pLX_317 24% 76.7% 76.7% V5 (not translated due to prior stop codon) 0_1ins354 n/a
2 TRCN0000488806 TGAAGTCGAGCTTAGTCCGTATAA pLX_317 19.7% 76.6% 76.6% V5 (not translated due to prior stop codon) 0_1ins354;1170_1171insTTG n/a
3 ccsbBroadEn_14877 pDONR223 100% 75.6% 25.1% None (many diffs) n/a
4 ccsbBroad304_14877 pLX_304 0% 75.6% 25.1% V5 (not translated due to prior stop codon) (many diffs) n/a
5 TRCN0000466532 GTCACTGTGTGTTCAAAAGAATTA pLX_317 23% 75.6% 25.1% V5 (not translated due to prior stop codon) (many diffs) n/a
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