Transcript: Human NM_006565.4

Homo sapiens CCCTC-binding factor (CTCF), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-09-16
Taxon:
Homo sapiens (human)
Gene:
CTCF (10664)
Length:
3814
CDS:
326..2509

Additional Resources:

NCBI RefSeq record:
NM_006565.4
NBCI Gene record:
CTCF (10664)

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 NM_006565.4, 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 TRCN0000230189 GTGGACGATACCCAGATTATA pLKO_005 593 CDS 100% 15.000 21.000 N CTCF n/a
2 TRCN0000230190 ACGTGTCCACGGCGTTCAAAT pLKO_005 1145 CDS 100% 13.200 18.480 N CTCF n/a
3 TRCN0000230191 CAAGAATGAGAAGCGCTTTAA pLKO_005 1792 CDS 100% 13.200 18.480 N CTCF n/a
4 TRCN0000014552 GCTGTGTTTCATGAGCGCTAT pLKO.1 1745 CDS 100% 4.050 5.670 N CTCF n/a
5 TRCN0000321371 GGTGCAATTGAGAACATTATA pLKO_005 2360 CDS 100% 15.000 10.500 N Ctcf n/a
6 TRCN0000360495 GCGAAAGCAGCATTCCTATAT pLKO_005 1693 CDS 100% 13.200 9.240 N Ctcf n/a
7 TRCN0000218498 TATGATTTCCCATCGACATTT pLKO_005 3328 3UTR 100% 13.200 9.240 N CTCF n/a
8 TRCN0000218175 TTAAGGCAGAAGGGTGATTAT pLKO_005 3395 3UTR 100% 13.200 9.240 N CTCF n/a
9 TRCN0000014550 CCTCCTGAGGAATCACCTTAA pLKO.1 1246 CDS 100% 10.800 7.560 N CTCF n/a
10 TRCN0000014548 GCCTCTTTCTTGGCAAAGTTT pLKO.1 3023 3UTR 100% 5.625 3.938 N CTCF n/a
11 TRCN0000014551 GCGGAAAGTGAACCCATGATA pLKO.1 767 CDS 100% 5.625 3.938 N CTCF n/a
12 TRCN0000014549 GCAAGGCAAGAAATGCCGTTA pLKO.1 1717 CDS 100% 4.050 2.835 N CTCF 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_006565.4, 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_02499 pDONR223 100% 100% 100% None n/a
2 ccsbBroad304_02499 pLX_304 0% 100% 100% V5 n/a
3 TRCN0000479923 ACCACACCGTTTGGGACACATCTC pLX_317 12.6% 100% 100% V5 n/a
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