Transcript: Human XM_005277639.2

PREDICTED: Homo sapiens COBW domain containing 3 (CBWD3), transcript variant X2, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CBWD3 (445571)
Length:
1692
CDS:
167..1267

Additional Resources:

NCBI RefSeq record:
XM_005277639.2
NBCI Gene record:
CBWD3 (445571)

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_005277639.2, 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 TRCN0000242508 ACAACACTTCTGAACTATATT pLKO_005 332 CDS 100% 15.000 7.500 Y CBWD1 n/a
2 TRCN0000242509 ACAATTATCACCGGGTATTTA pLKO_005 299 CDS 100% 15.000 7.500 Y CBWD1 n/a
3 TRCN0000433358 AGCTGATTGCAGAGATATAAT pLKO_005 1593 3UTR 100% 15.000 7.500 Y CBWD2 n/a
4 TRCN0000426044 CAACACTTCTGAACTATATTT pLKO_005 333 CDS 100% 15.000 7.500 Y CBWD2 n/a
5 TRCN0000242510 CTGAATTAGGGAGTGATATTT pLKO_005 627 CDS 100% 15.000 7.500 Y CBWD1 n/a
6 TRCN0000242757 GGTCCTCATTGGCAGAAATTT pLKO_005 1150 CDS 100% 15.000 7.500 Y CBWD5 n/a
7 TRCN0000242512 TAAGTTTCTACTGGGTATATT pLKO_005 1309 3UTR 100% 15.000 7.500 Y CBWD1 n/a
8 TRCN0000262472 ATAAGTTTCTACTGGGTATAT pLKO_005 1308 3UTR 100% 13.200 6.600 Y CBWD6 n/a
9 TRCN0000242760 ATCACTGCATGGAGGTCATAA pLKO_005 1002 CDS 100% 13.200 6.600 Y CBWD5 n/a
10 TRCN0000426464 CAACTTTCAACATTGTCATTT pLKO_005 1558 3UTR 100% 13.200 6.600 Y CBWD2 n/a
11 TRCN0000262469 CACAATTATCACCGGGTATTT pLKO_005 298 CDS 100% 13.200 6.600 Y CBWD6 n/a
12 TRCN0000130195 CCAAGATCCCAGTCACAATTA pLKO.1 285 CDS 100% 13.200 6.600 Y CBWD2 n/a
13 TRCN0000130162 CCTCACCTTGATCAGAGTATT pLKO.1 881 CDS 100% 13.200 6.600 Y CBWD2 n/a
14 TRCN0000135757 CCTCACCTTGATCAGAGTATT pLKO.1 881 CDS 100% 13.200 6.600 Y CBWD3 n/a
15 TRCN0000242511 CTTGATGGTATCATAACTATT pLKO_005 650 CDS 100% 13.200 6.600 Y CBWD1 n/a
16 TRCN0000134473 GATGACACTGAGAGAACAAAT pLKO.1 1124 CDS 100% 13.200 6.600 Y CBWD3 n/a
17 TRCN0000167471 GCAAAGGAAGAACATCTTAAT pLKO.1 932 CDS 100% 13.200 6.600 Y CBWD1 n/a
18 TRCN0000242758 TGAAGCTACTAGATCCATAAA pLKO_005 730 CDS 100% 13.200 6.600 Y CBWD5 n/a
19 TRCN0000242756 GAAATTGGCTTTGGAGTTTAC pLKO_005 1501 3UTR 100% 10.800 5.400 Y CBWD5 n/a
20 TRCN0000262471 TTGATGGTATCATAACTATTG pLKO_005 651 CDS 100% 10.800 5.400 Y CBWD6 n/a
21 TRCN0000135436 GCAGTGGACAACACATTTCAA pLKO.1 1225 CDS 100% 5.625 2.813 Y CBWD3 n/a
22 TRCN0000167645 GCTTTGGAGTTTACATATACT pLKO.1 1508 3UTR 100% 5.625 2.813 Y CBWD1 n/a
23 TRCN0000167241 CTACTGTGACAGAAACAGAAA pLKO.1 1203 CDS 100% 4.950 2.475 Y CBWD1 n/a
24 TRCN0000135519 GATGCTGAATTAGGGAGTGAT pLKO.1 623 CDS 100% 4.950 2.475 Y CBWD3 n/a
25 TRCN0000134746 GCCTTATCAATGAAGCTACTA pLKO.1 720 CDS 100% 4.950 2.475 Y CBWD3 n/a
26 TRCN0000130465 GCTACTGTGACAGAAACAGAA pLKO.1 1202 CDS 100% 4.950 2.475 Y CBWD2 n/a
27 TRCN0000136355 GCTACTGTGACAGAAACAGAA pLKO.1 1202 CDS 100% 4.950 2.475 Y CBWD3 n/a
28 TRCN0000135615 GTCACAATTATCACCGGGTAT pLKO.1 296 CDS 100% 4.050 2.025 Y CBWD3 n/a
29 TRCN0000128085 CTCTATGAAGAGTGGCTGGAA pLKO.1 452 CDS 100% 2.640 1.320 Y CBWD2 n/a
30 TRCN0000135648 GAAGGGATTGGTGTCAATCAA pLKO.1 1027 CDS 100% 0.563 0.281 Y CBWD3 n/a
31 TRCN0000136078 GTACCAGGAAATGCAAAGGAA pLKO.1 920 CDS 100% 0.000 0.000 Y CBWD3 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_005277639.2, 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.

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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_10172 pDONR223 100% 92.4% 92.4% None 394G>T;572_573ins87;804T>C n/a
2 ccsbBroad304_10172 pLX_304 0% 92.4% 92.4% V5 394G>T;572_573ins87;804T>C n/a
3 ccsbBroadEn_03674 pDONR223 100% 91.8% 90.8% None (many diffs) n/a
4 ccsbBroad304_03674 pLX_304 0% 91.8% 90.8% V5 (many diffs) n/a
5 TRCN0000492257 CAGAGTAATCATATCCCTTTGTTC pLX_317 36.1% 91.8% 90.8% V5 (many diffs) n/a
6 ccsbBroadEn_08604 pDONR223 100% 91.8% 90.8% None (many diffs) n/a
7 ccsbBroad304_08604 pLX_304 0% 91.8% 90.8% V5 (many diffs) n/a
8 ccsbBroadEn_09670 pDONR223 100% 91.6% 90.8% None (many diffs) n/a
9 TRCN0000473698 TTACTTGTTCAATCGAACGCGGTT pLX_317 42.3% 91.6% 90.8% V5 (many diffs) n/a
10 ccsbBroadEn_15265 pDONR223 73.3% 91.5% 90.8% None (many diffs) n/a
11 ccsbBroad304_15265 pLX_304 0% 91.5% 90.8% V5 (many diffs) n/a
12 ccsbBroadEn_08603 pDONR223 100% 80.9% 78% None (many diffs) n/a
13 ccsbBroad304_08603 pLX_304 0% 80.9% 78% V5 (many diffs) n/a
14 TRCN0000491579 GTTCACCCGAGATAGGATGAAGAC pLX_317 32.7% 80.9% 78% V5 (many diffs) n/a
15 ccsbBroadEn_13415 pDONR223 100% 48.8% 47.6% None (many diffs) n/a
16 ccsbBroad304_13415 pLX_304 0% 48.8% 47.6% V5 (many diffs) n/a
17 TRCN0000480607 CTTTTTTTTCAGTAGCCCCGCCGA pLX_317 73.5% 48.8% 47.6% V5 (many diffs) n/a
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