Transcript: Human XM_011537887.2

PREDICTED: Homo sapiens coiled-coil domain containing 38 (CCDC38), transcript variant X4, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CCDC38 (120935)
Length:
2176
CDS:
583..2154

Additional Resources:

NCBI RefSeq record:
XM_011537887.2
NBCI Gene record:
CCDC38 (120935)

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_011537887.2, 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 TRCN0000121843 GAACCGTAACATGAAAGTCTA pLKO.1 612 CDS 100% 4.950 6.930 N CCDC38 n/a
2 TRCN0000140922 CAATGAGGGAACGGCAACTAA pLKO.1 884 CDS 100% 5.625 4.500 N CCDC38 n/a
3 TRCN0000144969 GCAATTAAAGTCCAAGCTCTT pLKO.1 1689 CDS 100% 4.050 3.240 N CCDC38 n/a
4 TRCN0000140281 GAACTGTGTGACCTCATCGAA pLKO.1 1864 CDS 100% 3.000 2.400 N CCDC38 n/a
5 TRCN0000142842 CTGCTCCGATTCCTAGATTAA pLKO.1 740 CDS 100% 13.200 9.240 N CCDC38 n/a
6 TRCN0000145511 GAGAGGATGAAACAGAAAGAA pLKO.1 1915 CDS 100% 5.625 3.938 N CCDC38 n/a
7 TRCN0000121691 GAGCAGAATCTTACTTTGTTT pLKO.1 1513 CDS 100% 5.625 3.938 N CCDC38 n/a
8 TRCN0000144533 CAGAGATCTCTTTCTTGTCAA pLKO.1 552 5UTR 100% 4.950 3.465 N CCDC38 n/a
9 TRCN0000121844 GAGTATGCTTTGTCAACCAAA pLKO.1 829 CDS 100% 4.950 3.465 N CCDC38 n/a
10 TRCN0000145143 GATGATGAAATGGACGTTGAT pLKO.1 1429 CDS 100% 4.950 3.465 N CCDC38 n/a
11 TRCN0000143593 GCTAACTGTGTGAGAGAAGAA pLKO.1 1651 CDS 100% 4.950 3.465 N CCDC38 n/a
12 TRCN0000143951 CCAGCACTTTATTTCAAGGAA pLKO.1 1456 CDS 100% 3.000 2.100 N CCDC38 n/a
13 TRCN0000140770 GACACCAACAGGAAAGGCTAA pLKO.1 1979 CDS 100% 4.050 2.430 N CCDC38 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_011537887.2, 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_14364 pDONR223 100% 92.4% 92.5% None (many diffs) n/a
2 ccsbBroad304_14364 pLX_304 0% 92.4% 92.5% V5 (many diffs) n/a
3 TRCN0000476754 TGCAGATGGTAAGCGTAGAGCCTG pLX_317 21.2% 92.4% 92.5% V5 (many diffs) n/a
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