Transcript: Human XM_017028902.2

PREDICTED: Homo sapiens ret finger protein like 1 (RFPL1), transcript variant X2, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
RFPL1 (5988)
Length:
4856
CDS:
3622..4488

Additional Resources:

NCBI RefSeq record:
XM_017028902.2
NBCI Gene record:
RFPL1 (5988)

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_017028902.2, 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 TRCN0000417697 AGGAACGCTCTACTCGGTAAA pLKO_005 4547 3UTR 100% 10.800 7.560 N RFPL1 n/a
2 TRCN0000413026 GTTTATAAATTGAGTCCTAAG pLKO_005 4636 3UTR 100% 6.000 4.200 N RFPL1 n/a
3 TRCN0000033691 TGATAAGAGTGTCTTGAGTAT pLKO.1 4407 CDS 100% 4.950 3.465 N RFPL1 n/a
4 TRCN0000033690 CCACCTAATGGTGATAAGAGT pLKO.1 4396 CDS 100% 3.000 2.100 N RFPL1 n/a
5 TRCN0000033692 GTCTGCTTCAAGTGCATCAAT pLKO.1 3709 CDS 100% 5.625 3.375 N RFPL1 n/a
6 TRCN0000033758 GCGGAAGTTCCAAGTGGATAT pLKO.1 3894 CDS 100% 10.800 5.400 Y RFPL3 n/a
7 TRCN0000033761 CTCTTCGTAGACCGCAAGTTA pLKO.1 4240 CDS 100% 5.625 2.813 Y RFPL2 n/a
8 TRCN0000161059 GAGGAGAATATGACATCAGAT pLKO.1 635 5UTR 100% 4.950 2.475 Y C22orf42 n/a
9 TRCN0000033689 GCCAACAACTTCCTCCTCATT pLKO.1 3934 CDS 100% 4.950 2.475 Y RFPL1 n/a
10 TRCN0000033763 GCTGAAGAAGATTCTGCAGAT pLKO.1 3861 CDS 100% 4.050 2.025 Y RFPL2 n/a
11 TRCN0000033693 CGAGAGATTTGACGTGTCCAT pLKO.1 4014 CDS 100% 2.640 1.320 Y RFPL1 n/a
12 TRCN0000438357 GATTACCTCTGCTGGGTTAAG pLKO_005 1748 5UTR 100% 10.800 5.400 Y C22orf42 n/a
13 TRCN0000033756 CCCAAGCTGAAGAAGATTCTA pLKO.1 3856 CDS 100% 5.625 2.813 Y RFPL3 n/a
14 TRCN0000291861 CCCAAGCTGAAGAAGATTCTA pLKO_005 3856 CDS 100% 5.625 2.813 Y RFPL3 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_017028902.2, 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_07672 pDONR223 100% 95.6% 90.9% None (many diffs) n/a
2 ccsbBroad304_07672 pLX_304 0% 95.6% 90.9% V5 (many diffs) n/a
3 ccsbBroadEn_02517 pDONR223 100% 95.4% 90.6% None (many diffs) n/a
4 ccsbBroad304_02517 pLX_304 0% 95.4% 90.6% V5 (many diffs) n/a
5 TRCN0000481078 GTATTACCAGGTGCGATTAGCTGT pLX_317 51.6% 95.4% 90.6% V5 (many diffs) n/a
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