Transcript: Human NM_001204478.2

Homo sapiens TVP23C-CDRT4 readthrough (TVP23C-CDRT4), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-06-02
Taxon:
Homo sapiens (human)
Gene:
TVP23C-CDRT4 (100533496)
Length:
2761
CDS:
36..530

Additional Resources:

NCBI RefSeq record:
NM_001204478.2
NBCI Gene record:
TVP23C-CDRT4 (100533496)

shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human NM_001204478.2, 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 TRCN0000150156 GAGTCCTCTCAAGAGAATAAA pLKO.1 366 CDS 100% 15.000 7.500 Y TVP23B n/a
2 TRCN0000134426 GAATGTCACAGGTAGACTAAT pLKO.1 275 CDS 100% 13.200 6.600 Y TVP23C n/a
3 TRCN0000131117 GTTGCTCAGCAGCAGCTTTAT pLKO.1 200 CDS 100% 13.200 6.600 Y TVP23B n/a
4 TRCN0000413596 TACGTTGGTGGAATCACATTG pLKO_005 304 CDS 100% 10.800 5.400 Y TVP23B n/a
5 TRCN0000158003 CCAGAACCCACACACTTACAT pLKO.1 890 3UTR 100% 5.625 2.813 Y CDRT4 n/a
6 TRCN0000147919 GACGACTAATAGACCAAGAAA pLKO.1 98 CDS 100% 5.625 2.813 Y TVP23B n/a
7 TRCN0000156342 CCAGAGACTGTCCAACTGAAA pLKO.1 918 3UTR 100% 4.950 2.475 Y CDRT4 n/a
8 TRCN0000138106 GCACTCTTCTCCTTCACAGTA pLKO.1 468 CDS 100% 4.950 2.475 Y TVP23C n/a
9 TRCN0000152612 GAATAAACCTTCCAGCGTCAT pLKO.1 745 3UTR 100% 4.050 2.025 Y CDRT4 n/a
10 TRCN0000157503 GATTCCAGAGACTGTCCAACT pLKO.1 914 3UTR 100% 4.050 2.025 Y CDRT4 n/a
11 TRCN0000127763 GCAGCAGCTTTATTACCTGTA pLKO.1 208 CDS 100% 4.050 2.025 Y TVP23B n/a
12 TRCN0000136688 GCAGCAGCTTTATTACCTGTA pLKO.1 208 CDS 100% 4.050 2.025 Y TVP23C n/a
13 TRCN0000152905 GCATCAAGGCAGAATAAACCT pLKO.1 734 3UTR 100% 3.000 1.500 Y CDRT4 n/a
14 TRCN0000127511 CAGTGAAGAATGTCACAGGTA pLKO.1 268 CDS 100% 2.640 1.320 Y TVP23B n/a
15 TRCN0000136799 CAGTGAAGAATGTCACAGGTA pLKO.1 268 CDS 100% 2.640 1.320 Y TVP23C n/a
16 TRCN0000157969 CTATGATGAGGATGCTCCCTA pLKO.1 969 3UTR 100% 2.640 1.320 Y CDRT4 n/a
17 TRCN0000137769 GCAGTGAAGAATGTCACAGGT pLKO.1 267 CDS 100% 2.640 1.320 Y TVP23C n/a
18 TRCN0000157137 GCCTATGTCACCTATACCTCT pLKO.1 635 3UTR 100% 2.640 1.320 Y CDRT4 n/a
19 TRCN0000158325 CAAGATCATCTTTGCCCGCAA pLKO.1 946 3UTR 100% 2.160 1.080 Y CDRT4 n/a
20 TRCN0000156294 CGCTTATTCGGTATTGGCCAT pLKO.1 853 3UTR 100% 2.160 1.080 Y CDRT4 n/a
21 TRCN0000149371 GTTTCACTGTTTGATGCGGAA pLKO.1 72 CDS 100% 2.160 1.080 Y TVP23B 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_001204478.2, 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.

Download CSV

All ORF constructs matching this transcript

Clone ID DNA Barcode Vector Sequenced %[?] Nuc. Match %[?] Prot. Match %[?] Epitope Tag Match Diffs[?] Addgene[?]
1 ccsbBroadEn_03181 pDONR223 100% 77.2% 72.5% None (many diffs) n/a
2 TRCN0000476923 CCCGGCCTAACCAGTGAGCTAGGA pLX_317 28.6% 77.2% 72.5% V5 (many diffs) n/a
3 ccsbBroadEn_09811 pDONR223 100% 57.9% 54.9% None (many diffs) n/a
4 ccsbBroad304_09811 pLX_304 0% 57.9% 54.9% V5 (many diffs) n/a
5 TRCN0000470249 ATAGCCCCCTTATCGTCAGGACCG pLX_317 15.2% 57.9% 54.9% V5 (many diffs) n/a
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