Transcript: Human XM_011518780.3

PREDICTED: Homo sapiens chromosome 9 open reading frame 78 (C9orf78), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
C9orf78 (51759)
Length:
1702
CDS:
87..896

Additional Resources:

NCBI RefSeq record:
XM_011518780.3
NBCI Gene record:
C9orf78 (51759)

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_011518780.3, 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 TRCN0000263870 GACCTGGGCATCGATGCTAAA pLKO_005 555 CDS 100% 10.800 8.640 N C9orf78 n/a
2 TRCN0000263871 ATCGCCTTCCTCTCCCTATAT pLKO_005 920 3UTR 100% 13.200 9.240 N C9orf78 n/a
3 TRCN0000263867 CCAACATGGCTGTGAATTATG pLKO_005 670 CDS 100% 13.200 9.240 N C9orf78 n/a
4 TRCN0000263869 GGCAACTGATGACTATCATTA pLKO_005 842 CDS 100% 13.200 9.240 N C9orf78 n/a
5 TRCN0000167643 GCAGACATGATGAAGTACATT pLKO.1 363 CDS 100% 5.625 3.938 N C9orf78 n/a
6 TRCN0000167523 GTCTTTATGAACTTCCAGAAA pLKO.1 460 CDS 100% 4.950 3.465 N C9orf78 n/a
7 TRCN0000172754 CCAAAGAATGCAGAGGACTGT pLKO.1 441 CDS 100% 2.640 1.848 N C9orf78 n/a
8 TRCN0000078113 GCCTGTAATCCCAGCACTTTA pLKO.1 985 3UTR 100% 13.200 6.600 Y LIAS n/a
9 TRCN0000256748 GGCAGGAGAATTGCTTGAATC pLKO_005 1152 3UTR 100% 10.800 5.400 Y SMIM11A 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_011518780.3, 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_03379 pDONR223 100% 93% 93% None 82_83ins60 n/a
2 ccsbBroad304_03379 pLX_304 0% 93% 93% V5 82_83ins60 n/a
3 TRCN0000473867 ATTATCTAGGGCGGATTGCCAAAT pLX_317 27.9% 93% 93% V5 82_83ins60 n/a
4 ccsbBroadEn_15856 pDONR223 0% 92.7% 92.3% None (many diffs) n/a
5 ccsbBroad304_15856 pLX_304 0% 92.7% 92.3% V5 (many diffs) n/a
6 TRCN0000472185 TAAAGCCGATCGTCAGATGGCCCT pLX_317 40.2% 92.7% 92.3% V5 (many diffs) n/a
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