Transcript: Human XM_006722252.3

PREDICTED: Homo sapiens TBC1 domain family member 3D (TBC1D3D), transcript variant X5, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
TBC1D3D (101060389)
Length:
3007
CDS:
1424..3007

Additional Resources:

NCBI RefSeq record:
XM_006722252.3
NBCI Gene record:
TBC1D3D (101060389)

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_006722252.3, 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 TRCN0000255681 GGACATTAAGGAAGCATATAT pLKO_005 1875 CDS 100% 15.000 7.500 Y TBC1D3 n/a
2 TRCN0000262158 ATAACAAGAATCGCCTTTAAG pLKO_005 2255 CDS 100% 13.200 6.600 Y TBC1D3F n/a
3 TRCN0000262161 GAGCGAGAGGACATCATTATG pLKO_005 1463 CDS 100% 13.200 6.600 Y TBC1D3F n/a
4 TRCN0000265682 GATAACAAGAATCGCCTTTAA pLKO_005 2254 CDS 100% 13.200 6.600 Y TBC1D3 n/a
5 TRCN0000437046 GGGACGTAAGCGGGACATTAA pLKO_005 1863 CDS 100% 13.200 6.600 Y TBC1D3F n/a
6 TRCN0000262159 TTGGTTCCGCCATTATGATTT pLKO_005 2758 CDS 100% 13.200 6.600 Y TBC1D3F n/a
7 TRCN0000256846 ACAGGCGTTGATGCCGATAAC pLKO_005 2239 CDS 100% 10.800 5.400 Y n/a
8 TRCN0000421126 CACTGTGCTCAAGCATCTTAG pLKO_005 2368 CDS 100% 10.800 5.400 Y TBC1D3F n/a
9 TRCN0000118545 CAGGGATTTCACAGCCCAAAT pLKO.1 2087 CDS 100% 10.800 5.400 Y TBC1D3C n/a
10 TRCN0000118542 CGATAACAAGAATCGCCTTTA pLKO.1 2253 CDS 100% 10.800 5.400 Y TBC1D3C n/a
11 TRCN0000052405 CGGGACATTAAGGAAGCATAT pLKO.1 1873 CDS 100% 10.800 5.400 Y NPEPPSP1 n/a
12 TRCN0000262630 TGGTTCCGCCATTATGATTTC pLKO_005 2759 CDS 100% 10.800 5.400 Y TBC1D3H n/a
13 TRCN0000452941 TTGATGCCGATAACAAGAATC pLKO_005 2246 CDS 100% 10.800 5.400 Y TBC1D3B n/a
14 TRCN0000255680 TTGCAACCGGTTCGTTGATAC pLKO_005 2329 CDS 100% 10.800 5.400 Y TBC1D3 n/a
15 TRCN0000262628 AGGCGTTGATGCCGATAACAA pLKO_005 2241 CDS 100% 5.625 2.813 Y TBC1D3H n/a
16 TRCN0000118239 CGAGAGGACATCATTATGAAA pLKO.1 1466 CDS 100% 5.625 2.813 Y TBC1D3F n/a
17 TRCN0000118540 GCCTTGTTCCTCCTCTATCTT pLKO.1 2006 CDS 100% 5.625 2.813 Y TBC1D3B n/a
18 TRCN0000118541 CAAGCATCTTAGGGCCTCTAT pLKO.1 2377 CDS 100% 4.950 2.475 Y TBC1D3B n/a
19 TRCN0000118241 CCACTTGGAAAGTTCTCAGTT pLKO.1 2971 CDS 100% 4.950 2.475 Y TBC1D3F n/a
20 TRCN0000118546 GCTCATAGATCGAGCGTACAA pLKO.1 1702 CDS 100% 4.950 2.475 Y TBC1D3C n/a
21 TRCN0000118240 CCGATAACAAGAATCGCCTTT pLKO.1 2252 CDS 100% 4.050 2.025 Y TBC1D3F n/a
22 TRCN0000052404 GCGTTATTCCTAAAGTGGCTT pLKO.1 887 5UTR 100% 2.640 1.320 Y NPEPPSP1 n/a
23 TRCN0000118238 GCCGATAACAAGAATCGCCTT pLKO.1 2251 CDS 100% 2.160 1.080 Y TBC1D3F n/a
24 TRCN0000118544 CCTGGCATATGAGGAGTATAA pLKO.1 1945 CDS 100% 0.000 0.000 Y TBC1D3C 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_006722252.3, 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_10145 pDONR223 100% 95.8% 95.4% None (many diffs) n/a
2 ccsbBroad304_10145 pLX_304 0% 95.8% 95.4% V5 (many diffs) n/a
3 ccsbBroadEn_13681 pDONR223 100% 62.2% 49.1% None (many diffs) n/a
4 ccsbBroad304_13681 pLX_304 0% 62.2% 49.1% V5 (many diffs) n/a
5 TRCN0000467436 TGGATCCTATGCCTCATTGTTTAG pLX_317 29% 62.2% 49.1% V5 (many diffs) n/a
6 ccsbBroadEn_13692 pDONR223 100% 56.6% 44.7% None (many diffs) n/a
7 ccsbBroad304_13692 pLX_304 0% 56.6% 44.7% V5 (many diffs) n/a
8 TRCN0000471618 GCCCATAACCCTACGTGGCCAATT pLX_317 40.7% 56.6% 44.7% V5 (many diffs) n/a
9 ccsbBroadEn_12794 pDONR223 100% 55.1% 47.5% None 364T>A;763_862del;974_1581del n/a
10 ccsbBroad304_12794 pLX_304 0% 55.1% 47.5% V5 364T>A;763_862del;974_1581del n/a
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