Transcript: Human NM_001271804.2

Homo sapiens 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 (PFKFB1), transcript variant 2, mRNA.

Source:
NCBI, updated 2019-08-07
Taxon:
Homo sapiens (human)
Gene:
PFKFB1 (5207)
Length:
1973
CDS:
182..1531

Additional Resources:

NCBI RefSeq record:
NM_001271804.2
NBCI Gene record:
PFKFB1 (5207)

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 BRDN0001162492 CCAACACTACCAGAGAACGA pXPR_003 CGG 348 26% 5 0.6032 PFKFB1 PFKFB1 77632
2 BRDN0001147285 AAAGAGAATTGAGTGCTATG pXPR_003 AGG 532 39% 7 0.3848 PFKFB1 PFKFB1 77630
3 BRDN0001148427 ATGGTGGGTTTACCAGCTCG pXPR_003 AGG 155 11% 2 0.2603 PFKFB1 PFKFB1 77631
4 BRDN0001162299 CCTGCTTGCCGCGAACTGAG pXPR_003 AGG 764 57% 8 0.0304 PFKFB1 PFKFB1 77629
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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_001271804.2, 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 TRCN0000037592 GCACTGCGAGACCAAGATAAA pLKO.1 1166 CDS 100% 13.200 10.560 N PFKFB1 n/a
2 TRCN0000199261 CTCATCGCCTTCCACCTTTAG pLKO.1 1563 3UTR 100% 10.800 7.560 N PFKFB1 n/a
3 TRCN0000194803 CTTTAGGAAATGCTATCTTTG pLKO.1 1578 3UTR 100% 10.800 7.560 N PFKFB1 n/a
4 TRCN0000025627 CCACCTGTCCTACATCAAGAT pLKO.1 754 CDS 100% 4.950 3.465 N Pfkfb1 n/a
5 TRCN0000199064 CCAGGAACATTACCCTGAAGA pLKO.1 1141 CDS 100% 4.950 3.465 N PFKFB1 n/a
6 TRCN0000344729 CCAGGAACATTACCCTGAAGA pLKO_005 1141 CDS 100% 4.950 3.465 N PFKFB1 n/a
7 TRCN0000037593 CTAAAGAGAATTGAGTGCTAT pLKO.1 695 CDS 100% 4.950 3.465 N PFKFB1 n/a
8 TRCN0000037591 GCAAGACCTATATCTCCACAA pLKO.1 342 CDS 100% 4.050 2.835 N PFKFB1 n/a
9 TRCN0000333174 GCAAGACCTATATCTCCACAA pLKO_005 342 CDS 100% 4.050 2.835 N PFKFB1 n/a
10 TRCN0000199301 CGGCAAGCAGTATGCCTATGC pLKO.1 952 CDS 100% 1.350 0.945 N PFKFB1 n/a
11 TRCN0000344790 CGGCAAGCAGTATGCCTATGC pLKO_005 952 CDS 100% 1.350 0.945 N PFKFB1 n/a
12 TRCN0000199728 GCCTGTGTCCTCATCGCCTTC pLKO.1 1554 3UTR 100% 0.000 0.000 N PFKFB1 n/a
13 TRCN0000037590 CTGGCCTATTTCCTGGATAAA pLKO.1 1316 CDS 100% 13.200 7.920 N PFKFB1 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_001271804.2, 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_06714 pDONR223 100% 95.2% 95.1% None 221_222ins66;1141T>C n/a
2 TRCN0000465209 CCAAGAGATCCAATCTGACACCAC pLX_317 15.7% 95.2% 95.1% V5 221_222ins66;1141T>C n/a
3 TRCN0000468677 AGGTCTCTTACCTTAGGAGACTTT pLX_317 27% 80.3% 69.3% V5 (many diffs) n/a
4 ccsbBroadEn_14742 pDONR223 50% 66.6% 47.6% None (many diffs) n/a
5 ccsbBroad304_14742 pLX_304 0% 66.6% 47.6% V5 (not translated due to prior stop codon) (many diffs) n/a
6 ccsbBroadEn_11028 pDONR223 100% 60.3% 60.3% None 393_926del n/a
7 ccsbBroad304_11028 pLX_304 0% 60.3% 60.3% V5 393_926del n/a
8 TRCN0000480117 ATAGAGCTCCCACAACATGACCTC pLX_317 49% 60.3% 60.3% V5 393_926del n/a
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