Transcript: Human NM_001199119.1

Homo sapiens TRIM39-RPP21 readthrough (TRIM39-RPP21), mRNA.

Source:
NCBI, updated 2018-05-12
Taxon:
Homo sapiens (human)
Gene:
TRIM39-RPP21 (202658)
Length:
1567
CDS:
8..1519

Additional Resources:

NCBI RefSeq record:
NM_001199119.1
NBCI Gene record:
TRIM39-RPP21 (202658)

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_001199119.1, 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 TRCN0000232459 CTGCGGCTTTGGAGAACTTAC pLKO_005 57 CDS 100% 10.800 5.400 Y TRIM39 n/a
2 TRCN0000369427 GTATGCTTGATATGTGCAATT pLKO_005 380 CDS 100% 10.800 5.400 Y TRIM39 n/a
3 TRCN0000033881 CGAGATGCTTAAGGATGTCAA pLKO.1 775 CDS 100% 4.950 2.475 Y TRIM39 n/a
4 TRCN0000033882 CGATGCTACACAGGAGTACAA pLKO.1 439 CDS 100% 4.950 2.475 Y TRIM39 n/a
5 TRCN0000049718 GCAGATTCCAAACCACTACAA pLKO.1 1418 CDS 100% 4.950 2.475 Y RPP21 n/a
6 TRCN0000290673 GCAGATTCCAAACCACTACAA pLKO_005 1418 CDS 100% 4.950 2.475 Y RPP21 n/a
7 TRCN0000049719 ACCACTACAACCCTTGCCAAA pLKO.1 1429 CDS 100% 4.050 2.025 Y RPP21 n/a
8 TRCN0000290742 ACCACTACAACCCTTGCCAAA pLKO_005 1429 CDS 100% 4.050 2.025 Y RPP21 n/a
9 TRCN0000049721 CACTGAGAGGACCATTGCGAA pLKO.1 1174 CDS 100% 2.640 1.320 Y RPP21 n/a
10 TRCN0000290744 CACTGAGAGGACCATTGCGAA pLKO_005 1174 CDS 100% 2.640 1.320 Y RPP21 n/a
11 TRCN0000049722 CGCAGCCAACGCTTCCTCAAT pLKO.1 1343 CDS 100% 1.650 0.825 Y RPP21 n/a
12 TRCN0000290745 CGCAGCCAACGCTTCCTCAAT pLKO_005 1343 CDS 100% 1.650 0.825 Y RPP21 n/a
13 TRCN0000049720 TGGACCGTACAGACCTGCCTA pLKO.1 1313 CDS 100% 0.880 0.440 Y RPP21 n/a
14 TRCN0000290674 TGGACCGTACAGACCTGCCTA pLKO_005 1313 CDS 100% 0.880 0.440 Y RPP21 n/a
15 TRCN0000033883 GTCCTGTCTGTCGAAAGACAT pLKO.1 204 CDS 100% 0.495 0.248 Y TRIM39 n/a
16 TRCN0000232460 TACCGCAGTCTCCGACCTAAT pLKO_005 230 CDS 100% 0.000 0.000 Y TRIM39 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_001199119.1, 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_03734 pDONR223 100% 82.7% 74.1% None (many diffs) n/a
2 ccsbBroad304_03734 pLX_304 0% 82.7% 74.1% V5 (many diffs) n/a
3 TRCN0000473810 ACTGCTACCCACAGAAGCTTTACC pLX_317 26.2% 82.7% 74.1% V5 (many diffs) n/a
4 ccsbBroadEn_08648 pDONR223 100% 82.6% 74.1% None (many diffs) n/a
5 ccsbBroad304_08648 pLX_304 0% 82.6% 74.1% V5 (many diffs) n/a
6 TRCN0000470388 GGCACTGGGCCTCTGGCTAGAACC pLX_317 31.6% 82.6% 74.1% V5 (many diffs) n/a
7 ccsbBroadEn_08979 pDONR223 100% 29.5% 26.7% None (many diffs) n/a
8 ccsbBroad304_08979 pLX_304 0% 29.5% 26.7% V5 (many diffs) n/a
9 TRCN0000473156 CTTAAGAACCCACATGAATTAGTT pLX_317 98.7% 29.5% 26.7% V5 (many diffs) n/a
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