Transcript: Human NM_005709.4

Homo sapiens USH1 protein network component harmonin (USH1C), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-08-22
Taxon:
Homo sapiens (human)
Gene:
USH1C (10083)
Length:
2232
CDS:
110..1768

Additional Resources:

NCBI RefSeq record:
NM_005709.4
NBCI Gene record:
USH1C (10083)

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_005709.4, 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 TRCN0000412568 CAAGGATCCAGACTCTCATTC pLKO_005 2027 3UTR 100% 10.800 15.120 N USH1C n/a
2 TRCN0000429910 ACCAGATTGTCGAAGTCAATG pLKO_005 876 CDS 100% 10.800 7.560 N USH1C n/a
3 TRCN0000084144 CGGCAAGATTGTGACAGACTA pLKO.1 1627 CDS 100% 4.950 3.465 N USH1C n/a
4 TRCN0000084143 GACTCCTTCCTTGAACCCTAA pLKO.1 2091 3UTR 100% 4.050 2.835 N USH1C n/a
5 TRCN0000084145 CCGGATCAATGGATATTCCAT pLKO.1 514 CDS 100% 3.000 2.100 N USH1C n/a
6 TRCN0000084147 CCGGAAATATGAGGAAGGCTT pLKO.1 1399 CDS 100% 2.640 1.848 N USH1C n/a
7 TRCN0000084146 GCAGAGAAGGACTATCTCTAT pLKO.1 170 CDS 100% 0.495 0.347 N USH1C n/a
8 TRCN0000080259 GCTGGTCATCAATGAACCCAA pLKO.1 250 CDS 100% 2.640 3.696 N Ush1c 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_005709.4, 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_14038 pDONR223 100% 96.3% 96.1% None (many diffs) n/a
2 ccsbBroad304_14038 pLX_304 0% 96.3% 96.1% V5 (many diffs) n/a
3 TRCN0000465750 CAATCGATTGGTATATCGAAATTC pLX_317 23.4% 96.3% 96.1% V5 (many diffs) n/a
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