Transcript: Human XM_011534024.1

PREDICTED: Homo sapiens CUB domain containing protein 1 (CDCP1), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CDCP1 (64866)
Length:
5965
CDS:
97..2604

Additional Resources:

NCBI RefSeq record:
XM_011534024.1
NBCI Gene record:
CDCP1 (64866)

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.

No results found.

shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human XM_011534024.1, 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 TRCN0000136763 CATTGCAAACCGCTCATCTAT pLKO.1 723 CDS 100% 5.625 7.875 N CDCP1 n/a
2 TRCN0000137994 GCATTGCAAACCGCTCATCTA pLKO.1 722 CDS 100% 4.950 6.930 N CDCP1 n/a
3 TRCN0000134182 CTTTGTCATAGAGATCCAGAA pLKO.1 357 CDS 100% 4.050 5.670 N CDCP1 n/a
4 TRCN0000137203 GCTCATAAGAGCATCGGTTTA pLKO.1 484 CDS 100% 10.800 7.560 N CDCP1 n/a
5 TRCN0000136536 CCATCAAGTCTGGAGAAAGAA pLKO.1 299 CDS 100% 5.625 3.938 N CDCP1 n/a
6 TRCN0000134829 CCTGAGAATCACTTTGTCATA pLKO.1 346 CDS 100% 4.950 3.465 N CDCP1 n/a
7 TRCN0000138424 CGTCTCCTTCCTCAACTTCAA pLKO.1 882 CDS 100% 4.950 3.465 N CDCP1 n/a
8 TRCN0000138566 CGGATCAAGATGCAAGAAGGA pLKO.1 646 CDS 100% 2.640 1.848 N CDCP1 n/a
9 TRCN0000137839 GCCTACCCTCAACAGAACTTT pLKO.1 447 CDS 100% 5.625 3.375 N CDCP1 n/a
10 TRCN0000165534 GAGACAGGGTTTCACCATGTT pLKO.1 4499 3UTR 100% 4.950 2.475 Y n/a
11 TRCN0000155836 CCCAAAGTGCTGGGATTACAA pLKO.1 4572 3UTR 100% 5.625 2.813 Y KLHL30 n/a
12 TRCN0000141025 CCCAAAGTGCTGGGATTACTT pLKO.1 4572 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_011534024.1, 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_03981 pDONR223 99.1% 40.7% 40.6% None (many diffs) n/a
2 ccsbBroad304_03981 pLX_304 0% 40.7% 40.6% V5 (many diffs) n/a
3 TRCN0000472057 ACCTGTGAGTGTGGATATTGGGTA pLX_317 31.1% 40.7% 40.6% V5 (not translated due to prior stop codon) (many diffs) n/a
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