Transcript: Human XM_011543090.3

PREDICTED: Homo sapiens ceramide transporter 1 (CERT1), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CERT1 (10087)
Length:
5988
CDS:
428..2323

Additional Resources:

NCBI RefSeq record:
XM_011543090.3
NBCI Gene record:
CERT1 (10087)

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 BRDN0001148588 GGACAAACTACATTCATGGG pXPR_003 TGG 114 6% 2 0.6512 CERT1 COL4A3BP 77848
2 BRDN0001147254 GAAGAAAAGGCATCTCCAGA pXPR_003 GGG 1065 56% 10 0.3569 CERT1 COL4A3BP 77850
3 BRDN0001146451 TGAACTAATGGTTAAACGTG pXPR_003 AGG 805 42% 7 -0.1833 CERT1 COL4A3BP 77849
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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_011543090.3, 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 TRCN0000315401 CATAGTACCAACGGCAATAAA pLKO_005 1079 CDS 100% 15.000 21.000 N CERT1 n/a
2 TRCN0000006211 GCATAGTACCAACGGCAATAA pLKO.1 1078 CDS 100% 13.200 18.480 N CERT1 n/a
3 TRCN0000382287 GCTTCTCAGCGAGACGTATTA pLKO_005 1928 CDS 100% 13.200 18.480 N CERT1 n/a
4 TRCN0000006213 CCTCAGTAAGTGGACAAACTA pLKO.1 514 CDS 100% 5.625 7.875 N CERT1 n/a
5 TRCN0000006212 GCTGATAATGCAATCATCATT pLKO.1 1880 CDS 100% 5.625 7.875 N CERT1 n/a
6 TRCN0000315400 AGAACAGAGGAAGCATATAAA pLKO_005 1283 CDS 100% 15.000 10.500 N CERT1 n/a
7 TRCN0000315399 GACATGAAGTCTGCAATTATT pLKO_005 1791 CDS 100% 15.000 10.500 N CERT1 n/a
8 TRCN0000381675 ACTTTGGAGGACCAGATTATG pLKO_005 1335 CDS 100% 13.200 9.240 N CERT1 n/a
9 TRCN0000380482 AGCTGGAACGTAGGATCTATA pLKO_005 2243 CDS 100% 13.200 9.240 N CERT1 n/a
10 TRCN0000315402 CTTGCTCAGCATATAACTATA pLKO_005 2366 3UTR 100% 13.200 9.240 N CERT1 n/a
11 TRCN0000006215 GCAACACTTTCTCATTGTATT pLKO.1 1196 CDS 100% 13.200 9.240 N CERT1 n/a
12 TRCN0000382230 ACACGCTACAGAAGTACTTTG pLKO_005 954 CDS 100% 10.800 7.560 N CERT1 n/a
13 TRCN0000155836 CCCAAAGTGCTGGGATTACAA pLKO.1 5654 3UTR 100% 5.625 2.813 Y KLHL30 n/a
14 TRCN0000141025 CCCAAAGTGCTGGGATTACTT pLKO.1 5654 3UTR 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_011543090.3, 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_02307 pDONR223 100% 90.6% 87% None (many diffs) n/a
2 ccsbBroad304_02307 pLX_304 0% 90.6% 87% V5 (many diffs) n/a
3 ccsbBroadEn_14952 pDONR223 0% 90.6% 87% None (many diffs) n/a
4 ccsbBroad304_14952 pLX_304 0% 90.6% 87% V5 (many diffs) n/a
5 TRCN0000469218 AAAGCCCTTGACCATACCTTCCCA pLX_317 19.8% 90.6% 87% V5 (many diffs) n/a
6 TRCN0000487843 CTGCCGGGATGTCGATATGCACCT pLX_317 17% 90.6% 87% V5 (not translated due to prior stop codon) (many diffs) n/a
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