Transcript: Human XM_017025556.1

PREDICTED: Homo sapiens collagen and calcium binding EGF domains 1 (CCBE1), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CCBE1 (147372)
Length:
4014
CDS:
838..2145

Additional Resources:

NCBI RefSeq record:
XM_017025556.1
NBCI Gene record:
CCBE1 (147372)

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_017025556.1, 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 TRCN0000415424 AGCTGACCTGGGCAAGTATAT pLKO_005 1515 CDS 100% 13.200 10.560 N CCBE1 n/a
2 TRCN0000430525 GACCATAACTCCTCTAGTATC pLKO_005 2597 3UTR 100% 10.800 8.640 N CCBE1 n/a
3 TRCN0000055473 CCGAGTGCTGTGTACTTGTTA pLKO.1 1158 CDS 100% 5.625 4.500 N CCBE1 n/a
4 TRCN0000055476 GAAGCCATACTGTCTGGATAT pLKO.1 1221 CDS 100% 10.800 7.560 N CCBE1 n/a
5 TRCN0000425393 CCCAGAAGATTACGACGTTTG pLKO_005 1095 CDS 100% 6.000 4.200 N CCBE1 n/a
6 TRCN0000055474 CCATGAGAAGTCTGAGAACAT pLKO.1 1392 CDS 100% 4.950 3.465 N CCBE1 n/a
7 TRCN0000055475 GCTACTTATGCTGGCTGACAT pLKO.1 1964 CDS 100% 4.950 3.465 N CCBE1 n/a
8 TRCN0000055477 GTTCCCTTTACCTCAGGAATT pLKO.1 2051 CDS 100% 0.000 0.000 N CCBE1 n/a
9 TRCN0000419510 TACTCTCACAGTGTCTTAAAT pLKO_005 2472 3UTR 100% 15.000 9.000 N CCBE1 n/a
10 TRCN0000434031 GAGGGAGTGAATGATTGATTT pLKO_005 2364 3UTR 100% 13.200 7.920 N CCBE1 n/a
11 TRCN0000166201 CATGGTGAAACCCTGTCTCTA pLKO.1 3987 3UTR 100% 4.950 2.475 Y ORAI2 n/a
12 TRCN0000136653 GCCTGACCAACATGGTGAAAT pLKO.1 3977 3UTR 100% 13.200 6.600 Y IQCC n/a
13 TRCN0000179120 CAACATGGTGAAACCCTGTTT pLKO.1 3984 3UTR 100% 4.950 2.475 Y LOC339059 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_017025556.1, 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_13238 pDONR223 100% 46.5% 22.6% None 1_573del;775_887del;1305_1306ins26 n/a
2 ccsbBroad304_13238 pLX_304 0% 46.5% 22.6% V5 1_573del;775_887del;1305_1306ins26 n/a
3 TRCN0000468830 GTGTAAAAGATTTGCGCTGATTGG pLX_317 60.9% 46.5% 22.6% V5 1_573del;775_887del;1305_1306ins26 n/a
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