Transcript: Human NM_005901.6

Homo sapiens SMAD family member 2 (SMAD2), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-08-22
Taxon:
Homo sapiens (human)
Gene:
SMAD2 (4087)
Length:
34626
CDS:
353..1756

Additional Resources:

NCBI RefSeq record:
NM_005901.6
NBCI Gene record:
SMAD2 (4087)

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_005901.6, 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 TRCN0000040037 CCTAAGTGATAGTGCAATCTT pLKO.1 1399 CDS 100% 5.625 7.875 N SMAD2 n/a
2 TRCN0000288652 CCTAAGTGATAGTGCAATCTT pLKO_005 1399 CDS 100% 5.625 7.875 N SMAD2 n/a
3 TRCN0000040036 CGATTAGATGAGCTTGAGAAA pLKO.1 521 CDS 100% 4.950 6.930 N SMAD2 n/a
4 TRCN0000288651 CGATTAGATGAGCTTGAGAAA pLKO_005 521 CDS 100% 4.950 6.930 N SMAD2 n/a
5 TRCN0000040035 GCGTTGCTCAAGCATGTCATA pLKO.1 1735 CDS 100% 4.950 6.930 N SMAD2 n/a
6 TRCN0000288592 GCGTTGCTCAAGCATGTCATA pLKO_005 1735 CDS 100% 4.950 6.930 N SMAD2 n/a
7 TRCN0000089337 CTAAGTGATAGTGCAATCTTT pLKO.1 1400 CDS 100% 5.625 4.500 N Smad2 n/a
8 TRCN0000327372 CTAAGTGATAGTGCAATCTTT pLKO_005 1400 CDS 100% 5.625 4.500 N Smad2 n/a
9 TRCN0000010477 CAAGTACTCCTTGCTGGATTG pLKO.1 1647 CDS 100% 6.000 4.200 N SMAD2 n/a
10 TRCN0000295815 CAAGTACTCCTTGCTGGATTG pLKO_005 1647 CDS 100% 6.000 4.200 N SMAD2 n/a
11 TRCN0000040033 CCAGTAATAGTTGCATTGATA pLKO.1 2547 3UTR 100% 5.625 3.938 N SMAD2 n/a
12 TRCN0000010478 CATGATCCAGTATCACAGTAT pLKO.1 2075 3UTR 100% 4.950 3.465 N SMAD2 n/a
13 TRCN0000295870 CATGATCCAGTATCACAGTAT pLKO_005 2075 3UTR 100% 4.950 3.465 N SMAD2 n/a
14 TRCN0000010476 GACGATTAGATGAGCTTGAGA pLKO.1 519 CDS 100% 3.000 2.100 N SMAD2 n/a
15 TRCN0000040034 CCCATCAAATTCAGAGAGGTT pLKO.1 1264 CDS 100% 2.640 1.848 N SMAD2 n/a
16 TRCN0000204533 CCTCCCAAAGTGCTGGAATTA pLKO.1 13243 3UTR 100% 13.200 6.600 Y LRRC74B n/a
17 TRCN0000165470 GCACCGCCCTTAATCCATTTA pLKO.1 14885 3UTR 100% 13.200 6.600 Y LOC389286 n/a
18 TRCN0000072628 CCTCCCAAAGTGCTAGGATTA pLKO.1 24011 3UTR 100% 10.800 5.400 Y MRPS16 n/a
19 TRCN0000165057 GAGTGGACACAGCACATGTTT pLKO.1 14911 3UTR 100% 5.625 2.813 Y LOC389286 n/a
20 TRCN0000165534 GAGACAGGGTTTCACCATGTT pLKO.1 13173 3UTR 100% 4.950 2.475 Y n/a
21 TRCN0000021409 GCTGCCTTCAAGCATCTGTTT pLKO.1 14849 3UTR 100% 4.950 2.475 Y NEK5 n/a
22 TRCN0000161379 GCATCTGTTTAACAAAGCACA pLKO.1 14860 3UTR 100% 2.640 1.320 Y LOC389286 n/a
23 TRCN0000172742 GAGACAGAGTCTTGCTCTGTT pLKO.1 13008 3UTR 100% 0.495 0.248 Y C11orf44 n/a
24 TRCN0000089025 CCTTACCACTATCAGAGAGTA pLKO.1 842 CDS 100% 4.950 3.465 N Smad3 n/a
25 TRCN0000078113 GCCTGTAATCCCAGCACTTTA pLKO.1 26003 3UTR 100% 13.200 6.600 Y LIAS n/a
26 TRCN0000140657 CCTCCCAAAGTGCTAGGATAA pLKO.1 24011 3UTR 100% 10.800 5.400 Y CD3EAP n/a
27 TRCN0000156198 CCTCTTGAGTAGCTGGGATTA pLKO.1 30469 3UTR 100% 10.800 5.400 Y MRPL49 n/a
28 TRCN0000276507 CCTCTTGAGTAGCTGGGATTA pLKO_005 30469 3UTR 100% 10.800 5.400 Y MRPL49 n/a
29 TRCN0000155836 CCCAAAGTGCTGGGATTACAA pLKO.1 6260 3UTR 100% 5.625 2.813 Y KLHL30 n/a
30 TRCN0000264189 CAAGTAGCTGGGACTACAGGA pLKO_005 6128 3UTR 100% 2.640 1.320 Y LINC01098 n/a
31 TRCN0000141025 CCCAAAGTGCTGGGATTACTT pLKO.1 6260 3UTR 100% 5.625 2.813 Y EID2B n/a
32 TRCN0000107105 CGAGGTCAGGAGTTTGAGATT pLKO.1 26586 3UTR 100% 4.950 2.475 Y NLRP12 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_005901.6, 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_00961 pDONR223 100% 100% 100% None n/a
2 ccsbBroad304_00961 pLX_304 0% 100% 100% V5 n/a
3 TRCN0000465710 TTTCGGTCGAACATAGACGACCGG pLX_317 25.6% 100% 100% V5 n/a
4 ccsbBroadEn_06549 pDONR223 100% 69.3% 83.9% None (many diffs) n/a
5 ccsbBroad304_06549 pLX_304 52.9% 69.3% 83.9% V5 (many diffs) n/a
6 TRCN0000469603 CAAACTTGGTTGGCATGCAAAGAT pLX_317 28.1% 69.3% 83.9% V5 (many diffs) n/a
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