Transcript: Human NM_001080826.3

Homo sapiens PEAK1 related, kinase-activating pseudokinase 1 (PRAG1), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-06-30
Taxon:
Homo sapiens (human)
Gene:
PRAG1 (157285)
Length:
4845
CDS:
207..4427

Additional Resources:

NCBI RefSeq record:
NM_001080826.3
NBCI Gene record:
PRAG1 (157285)

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 BRDN0001147337 GGGAGCAGTAATCACTCTCG pXPR_003 AGG 1085 26% 3 0.0949 PRAG1 PRAG1 75792
2 BRDN0001147947 TGGAGTTTGAATGGTCCGTG pXPR_003 GGG 1988 47% 3 -0.4685 PRAG1 PRAG1 75793
3 BRDN0001146707 GCAATGTTCCTCTCGCCGCG pXPR_003 GGG 510 12% 3 -0.6252 PRAG1 PRAG1 75791
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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_001080826.3, 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 TRCN0000199392 CCACGACGAATCTCACTTTAG pLKO.1 2774 CDS 100% 10.800 15.120 N PRAG1 n/a
2 TRCN0000037424 GCACAACTGGATCGACATGAA pLKO.1 4259 CDS 100% 4.950 6.930 N PRAG1 n/a
3 TRCN0000037428 GTACCGCAAGTTCGATGAGTT pLKO.1 3950 CDS 100% 0.000 0.000 N PRAG1 n/a
4 TRCN0000037425 CGGAGGATGACAGTGATCAAA pLKO.1 907 CDS 100% 5.625 4.500 N PRAG1 n/a
5 TRCN0000298762 CGGAGGATGACAGTGATCAAA pLKO_005 907 CDS 100% 5.625 4.500 N PRAG1 n/a
6 TRCN0000200015 CCAGGTATGCACAGGTAATGC pLKO.1 1535 CDS 100% 4.950 3.960 N PRAG1 n/a
7 TRCN0000199835 GAGTCGTCAGTGCCGGATAGA pLKO.1 2105 CDS 100% 1.650 1.320 N PRAG1 n/a
8 TRCN0000307996 GAGTCGTCAGTGCCGGATAGA pLKO_005 2105 CDS 100% 1.650 1.320 N PRAG1 n/a
9 TRCN0000381719 ACAGCGGGAAGAAGCTCTTTG pLKO_005 2560 CDS 100% 10.800 7.560 N PRAG1 n/a
10 TRCN0000310168 GCCAGGTATGCACAGGTAATG pLKO_005 1534 CDS 100% 10.800 7.560 N PRAG1 n/a
11 TRCN0000295928 TCGTCTCCTCTCTGCACTAAG pLKO_005 4626 3UTR 100% 10.800 7.560 N PRAG1 n/a
12 TRCN0000199343 CGGCTCATCATCAGCAACTTT pLKO.1 3837 CDS 100% 5.625 3.938 N PRAG1 n/a
13 TRCN0000037427 CCTGGAAGATGAAGGTGTGAA pLKO.1 410 CDS 100% 4.950 3.465 N PRAG1 n/a
14 TRCN0000037426 CGCTCTTCAAGCTGACTTGTA pLKO.1 3175 CDS 100% 4.950 3.465 N PRAG1 n/a
15 TRCN0000199792 GATGAGCAAATCCGCCTCTTT pLKO.1 2276 CDS 100% 4.950 3.465 N PRAG1 n/a
16 TRCN0000199666 GTCTCCTCTCTGCACTAAGTC pLKO.1 4628 3UTR 100% 4.950 3.465 N PRAG1 n/a
17 TRCN0000199870 GAGTGATTACTGCTCCCTCAT pLKO.1 1292 CDS 100% 4.050 2.835 N PRAG1 n/a
18 TRCN0000382470 AGCTCCACTTCAATGAGAATA pLKO_005 3148 CDS 100% 13.200 7.920 N PRAG1 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_001080826.3, 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_15270 pDONR223 41% 91.1% 18.4% None (many diffs) n/a
2 ccsbBroad304_15270 pLX_304 0% 91.1% 18.4% V5 (not translated due to prior stop codon) (many diffs) n/a
3 TRCN0000471519 CGCCCTGGAGCCCAAGCTTATCAA pLX_317 10.1% 91.1% 18.4% V5 (not translated due to prior stop codon) (many diffs) n/a
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