Transcript: Human XM_011535034.3

PREDICTED: Homo sapiens poly(A) specific ribonuclease subunit PAN3 (PAN3), transcript variant X5, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
PAN3 (255967)
Length:
8455
CDS:
3417..5642

Additional Resources:

NCBI RefSeq record:
XM_011535034.3
NBCI Gene record:
PAN3 (255967)

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 BRDN0001147703 AGTATGTGGAGTAATCTTGG pXPR_003 GGG 604 27% 7 1.1713 PAN3 PAN3 77425
2 BRDN0001146176 GCATGGTGTTGGTCGACATG pXPR_003 TGG 1176 53% 11 0.8359 PAN3 PAN3 77426
3 BRDN0001146135 GGTTGCATATAAGCAACGTG pXPR_003 AGG 852 38% 8 0.1287 PAN3 PAN3 77424
4 BRDN0001146404 AGCCAAGGAAGTATCGCCTG pXPR_003 GGG 267 12% 5 0.1136 PAN3 PAN3 77423
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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_011535034.3, 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 TRCN0000414180 CACTTGTATATGCACTAATTT pLKO_005 5918 3UTR 100% 15.000 21.000 N PAN3 n/a
2 TRCN0000413059 CATTACGGACCAGGTAAATAA pLKO_005 6099 3UTR 100% 15.000 21.000 N PAN3 n/a
3 TRCN0000417253 TAACGTGTCCCAGTCAAATAT pLKO_005 3890 CDS 100% 15.000 21.000 N PAN3 n/a
4 TRCN0000049807 CGAGTAAATTGTGTTGGAGTT pLKO.1 4941 CDS 100% 4.050 5.670 N PAN3 n/a
5 TRCN0000429104 GGTGTTTCCAAACTATCATAT pLKO_005 4226 CDS 100% 13.200 10.560 N PAN3 n/a
6 TRCN0000049806 CGTTGCTTATATGCAACCGAA pLKO.1 4268 CDS 100% 0.264 0.211 N PAN3 n/a
7 TRCN0000433299 ATCTCTTATTTGGGCATATAT pLKO_005 4820 CDS 100% 15.000 10.500 N PAN3 n/a
8 TRCN0000423116 ATCCTACTGCAAGCGAGTTTA pLKO_005 3838 CDS 100% 13.200 9.240 N PAN3 n/a
9 TRCN0000423444 CAAGCAGATCTGATATCATTA pLKO_005 5028 CDS 100% 13.200 9.240 N PAN3 n/a
10 TRCN0000049803 CCCTCTCTTGTGTTTGCATAT pLKO.1 4665 CDS 100% 10.800 7.560 N PAN3 n/a
11 TRCN0000426594 GACATGGCTAAAGACCTTAAC pLKO_005 5665 3UTR 100% 10.800 7.560 N PAN3 n/a
12 TRCN0000049804 CCAAGATTACTCCACATACTT pLKO.1 4018 CDS 100% 5.625 3.938 N PAN3 n/a
13 TRCN0000120024 GCTGCTCAAATGAGAAATGAT pLKO.1 5253 CDS 100% 5.625 3.938 N Pan3 n/a
14 TRCN0000049805 CGTTATCTGTTGAAACTCTTT pLKO.1 5400 CDS 100% 4.950 3.465 N PAN3 n/a
15 TRCN0000120025 CCAGTCAAATATGTCTGCCTT pLKO.1 3899 CDS 100% 2.640 1.848 N Pan3 n/a
16 TRCN0000072628 CCTCCCAAAGTGCTAGGATTA pLKO.1 243 5UTR 100% 10.800 5.400 Y MRPS16 n/a
17 TRCN0000140657 CCTCCCAAAGTGCTAGGATAA pLKO.1 243 5UTR 100% 10.800 5.400 Y CD3EAP n/a
18 TRCN0000155836 CCCAAAGTGCTGGGATTACAA pLKO.1 1187 5UTR 100% 5.625 2.813 Y KLHL30 n/a
19 TRCN0000141025 CCCAAAGTGCTGGGATTACTT pLKO.1 1187 5UTR 100% 5.625 2.813 Y EID2B 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_011535034.3, 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_13473 pDONR223 100% 74.5% 74.6% None 1_564del;837T>C n/a
2 ccsbBroad304_13473 pLX_304 0% 74.5% 74.6% V5 1_564del;837T>C n/a
3 TRCN0000481456 TACGCTTACCACCTCCCGTTTTAT pLX_317 25.7% 74.5% 74.6% V5 1_564del;837T>C n/a
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