Transcript: Human NM_001199823.2

Homo sapiens NEDD8-MDP1 readthrough (NEDD8-MDP1), transcript variant 1, mRNA.

Source:
NCBI, updated 2018-05-24
Taxon:
Homo sapiens (human)
Gene:
NEDD8-MDP1 (100528064)
Length:
787
CDS:
119..700

Additional Resources:

NCBI RefSeq record:
NM_001199823.2
NBCI Gene record:
NEDD8-MDP1 (100528064)

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_001199823.2, 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 TRCN0000147797 GTACTTTGTTCATCGGGAAAT pLKO.1 433 CDS 100% 10.800 5.400 Y MDP1 n/a
2 TRCN0000146672 CTTTGTTCATCGGGAAATCTA pLKO.1 436 CDS 100% 5.625 2.813 Y MDP1 n/a
3 TRCN0000149118 GACCTCTTCAGGTACTTTGTT pLKO.1 422 CDS 100% 5.625 2.813 Y MDP1 n/a
4 TRCN0000146571 CCAGAATGGAATGAATCTTCA pLKO.1 592 CDS 100% 4.950 2.475 Y MDP1 n/a
5 TRCN0000147174 CCAGATGATCTTCTTTGATGA pLKO.1 517 CDS 100% 4.950 2.475 Y MDP1 n/a
6 TRCN0000146415 CCTCTTCAGGTACTTTGTTCA pLKO.1 424 CDS 100% 4.950 2.475 Y MDP1 n/a
7 TRCN0000149258 GCTTCAAGGACAAGTGAGATA pLKO.1 371 CDS 100% 4.950 2.475 Y MDP1 n/a
8 TRCN0000006498 GAAAGGAGATTGAGATTGACA pLKO.1 147 CDS 100% 3.000 1.500 Y NEDD8 n/a
9 TRCN0000342418 GAAAGGAGATTGAGATTGACA pLKO_005 147 CDS 100% 3.000 1.500 Y NEDD8 n/a
10 TRCN0000149906 GATCACACACTTTGAGAGGTT pLKO.1 469 CDS 100% 2.640 1.320 Y MDP1 n/a
11 TRCN0000148437 CTCTAAGTCAAGGGTTAGAGA pLKO.1 615 CDS 100% 0.300 0.150 Y MDP1 n/a
12 TRCN0000006501 CCTACAGACAAGGTGGAGCGA pLKO.1 173 CDS 100% 0.220 0.110 Y NEDD8 n/a
13 TRCN0000342419 CCTACAGACAAGGTGGAGCGA pLKO_005 173 CDS 100% 0.220 0.110 Y NEDD8 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_001199823.2, 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_04977 pDONR223 100% 81.1% 77.2% None (many diffs) n/a
2 ccsbBroad304_04977 pLX_304 0% 81.1% 77.2% V5 (many diffs) n/a
3 TRCN0000478768 GCACCCATTTAACACCACGAGACA pLX_317 70% 81.1% 77.2% V5 (many diffs) n/a
4 ccsbBroadEn_01082 pDONR223 100% 36.1% 28.4% None (many diffs) n/a
5 ccsbBroad304_01082 pLX_304 0% 36.1% 28.4% V5 (many diffs) n/a
6 TRCN0000491483 CATGTCGAAACAGCCTCAAGAGAT pLX_317 100% 36.1% 28.4% V5 (many diffs) n/a
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