Transcript: Human XM_005261135.3

PREDICTED: Homo sapiens phosphofructokinase, liver type (PFKL), transcript variant X4, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
PFKL (5211)
Length:
2989
CDS:
67..2478

Additional Resources:

NCBI RefSeq record:
XM_005261135.3
NBCI Gene record:
PFKL (5211)

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 BRDN0001149194 ACAGTATACGTGGTGCACGA pXPR_003 TGG 1376 57% 14 0.9396 PFKL PFKL 77409
2 BRDN0001146574 GAGGGTGCCATTGACCGCAA pXPR_003 CGG 875 36% 9 0.0358 PFKL PFKL 77410
3 BRDN0001145187 CTACTCGCACCTGAACATCG pXPR_003 CGG 541 22% 6 -0.2435 PFKL PFKL 77411
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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 XM_005261135.3, 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 TRCN0000010111 CTTTCAACATCCACGACTTAA pLKO.1 1928 CDS 100% 13.200 18.480 N PFKL n/a
2 TRCN0000199321 CCTAGTGGGCTCCATCGATAA pLKO.1 615 CDS 100% 10.800 15.120 N PFKL n/a
3 TRCN0000199670 GCTCCATCGATAACGACTTCT pLKO.1 623 CDS 100% 4.950 6.930 N PFKL n/a
4 TRCN0000342394 GCTCCATCGATAACGACTTCT pLKO_005 623 CDS 100% 4.950 6.930 N PFKL n/a
5 TRCN0000010103 CGAGAACAACTGGAACATTTA pLKO.1 1269 CDS 100% 13.200 9.240 N PFKL n/a
6 TRCN0000342353 CGAGAACAACTGGAACATTTA pLKO_005 1269 CDS 100% 13.200 9.240 N PFKL n/a
7 TRCN0000199692 CTGAAGATGCTGGCACAATAC pLKO.1 2377 CDS 100% 10.800 7.560 N PFKL n/a
8 TRCN0000342395 CTGAAGATGCTGGCACAATAC pLKO_005 2377 CDS 100% 10.800 7.560 N PFKL n/a
9 TRCN0000199860 GCTGGCACAATACCGCATCAG pLKO.1 2385 CDS 100% 1.350 0.945 N PFKL n/a
10 TRCN0000342355 GCTGGCACAATACCGCATCAG pLKO_005 2385 CDS 100% 1.350 0.945 N PFKL n/a
11 TRCN0000199693 CGGGCTGGTGTCTTGAGACCA pLKO.1 2645 3UTR 100% 0.000 0.000 N PFKL n/a
12 TRCN0000199767 GCCAGCCCTTGCTCTACCTGG pLKO.1 2821 3UTR 100% 0.000 0.000 N PFKL n/a
13 TRCN0000196457 GCTCAAGAAAGACACTGATTT pLKO.1 2307 CDS 100% 13.200 7.920 N PFKL 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_005261135.3, 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 TRCN0000491856 GGTCGCCCTAATCCGCAGAATTAT pLX_317 14.4% 97% 97% V5 159_227del;2409_2410insG n/a
2 ccsbBroadEn_15524 pDONR223 0% 97% 97.1% None 159_227del;435C>T n/a
3 ccsbBroad304_15524 pLX_304 0% 97% 97.1% V5 159_227del;435C>T n/a
4 TRCN0000481270 CGAAACCAGAAGAAAAAACATGAC pLX_317 22.6% 97% 97.1% V5 159_227del;435C>T n/a
5 TRCN0000489124 TAATCGTGGCGACGGTAACATTCG pLX_317 15% 97% 97% V5 (not translated due to prior stop codon) 159_227del;435C>T;2051T>C n/a
6 ccsbBroadEn_15523 pDONR223 0% 97% 96.8% None (many diffs) n/a
7 ccsbBroad304_15523 pLX_304 0% 97% 96.8% V5 (many diffs) n/a
8 ccsbBroadEn_10491 pDONR223 100% 90% 89.2% None (many diffs) n/a
9 ccsbBroad304_10491 pLX_304 0% 90% 89.2% V5 (many diffs) n/a
10 TRCN0000473690 GAGTCTTACCTCTAACTGGCGGCC pLX_317 14.7% 90% 89.2% V5 (many diffs) n/a
11 ccsbBroadEn_14745 pDONR223 0% 90% 89.2% None (many diffs) n/a
12 ccsbBroad304_14745 pLX_304 0% 90% 89.2% V5 (many diffs) n/a
13 TRCN0000480916 TCGCACACGGACTCGTTGGGCGAT pLX_317 18% 90% 89.2% V5 (many diffs) n/a
14 ccsbBroadEn_15525 pDONR223 0% 57.9% 57.9% None 1_1014del n/a
15 ccsbBroad304_15525 pLX_304 0% 57.9% 57.9% V5 1_1014del n/a
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