Transcript: Human XM_011532401.1

PREDICTED: Homo sapiens 3'-phosphoadenosine 5'-phosphosulfate synthase 1 (PAPSS1), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
PAPSS1 (9061)
Length:
2608
CDS:
214..2025

Additional Resources:

NCBI RefSeq record:
XM_011532401.1
NBCI Gene record:
PAPSS1 (9061)

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 BRDN0001145512 GATGGTGACAATATTCGTCA pXPR_003 AGG 212 12% 3 0.4061 PAPSS1 PAPSS1 77611
2 BRDN0001147882 TGTGAACAGAGGGATGTCAA pXPR_003 AGG 446 25% 4 0.2898 PAPSS1 PAPSS1 77612
3 BRDN0001148228 TTTCATATCACCTTACACTC pXPR_003 AGG 343 19% 3 -0.1431 PAPSS1 PAPSS1 77613
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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_011532401.1, 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 TRCN0000382371 ATTCGTCAAGGTCTCAATAAA pLKO_005 421 CDS 100% 15.000 21.000 N PAPSS1 n/a
2 TRCN0000010179 TGGATCGAGTTTATTGGAATG pLKO.1 1301 CDS 100% 6.000 8.400 N PAPSS1 n/a
3 TRCN0000320507 TGGATCGAGTTTATTGGAATG pLKO_005 1301 CDS 100% 6.000 8.400 N PAPSS1 n/a
4 TRCN0000010173 GGAGGTGTCATTAACTTGTCA pLKO.1 1045 CDS 100% 3.000 2.400 N PAPSS1 n/a
5 TRCN0000320432 GGAGGTGTCATTAACTTGTCA pLKO_005 1045 CDS 100% 3.000 2.400 N PAPSS1 n/a
6 TRCN0000380198 ACCAGTAGTATTCACATTAAA pLKO_005 2335 3UTR 100% 15.000 10.500 N PAPSS1 n/a
7 TRCN0000320435 ATTCATGAAGGTGCAAGTTTA pLKO_005 583 CDS 100% 13.200 9.240 N PAPSS1 n/a
8 TRCN0000010172 GGAAACATTACCAGCACTGAA pLKO.1 903 CDS 100% 4.950 3.465 N PAPSS1 n/a
9 TRCN0000010180 GGCCATCTTCCCATCTCCCAT pLKO.1 1614 CDS 100% 0.880 0.616 N PAPSS1 n/a
10 TRCN0000320508 GGCCATCTTCCCATCTCCCAT pLKO_005 1614 CDS 100% 0.880 0.616 N PAPSS1 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_011532401.1, 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 ccsbBroadEn_14925 pDONR223 0% 100% 100% None n/a
2 ccsbBroad304_14925 pLX_304 0% 100% 100% V5 n/a
3 TRCN0000466779 ATTAGCAGGAAGAAATATGTGGTT pLX_317 22.2% 99.8% 99.8% V5 1797_1798delCTinsTA n/a
4 TRCN0000491740 GACTTCGACTGTCGATACGGATGT pLX_317 23.8% 100% 100% V5 (not translated due to prior stop codon) n/a
5 TRCN0000487874 CAACTGTATAAGAGCGAGAACATC pLX_317 16.3% 99.9% 99.8% V5 1809_1810insG n/a
6 ccsbBroadEn_14011 pDONR223 100% 99.9% 99.8% None 14C>A n/a
7 ccsbBroad304_14011 pLX_304 0% 99.9% 99.8% V5 14C>A n/a
8 TRCN0000465760 CCATCGCCATTCATCGTGCCCCGC pLX_317 22.2% 99.9% 99.8% V5 14C>A n/a
9 ccsbBroadEn_07352 pDONR223 100% 96.6% 96.6% None 0_1ins63 n/a
10 ccsbBroad304_07352 pLX_304 0% 96.6% 96.6% V5 0_1ins63 n/a
11 TRCN0000469199 ATGTTAACCCTACTTTGCTGTCTT pLX_317 22.9% 96.6% 96.6% V5 0_1ins63 n/a
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