Transcript: Human XM_005247138.3

PREDICTED: Homo sapiens rhophilin associated tail protein 1B (ROPN1B), transcript variant X2, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
ROPN1B (152015)
Length:
897
CDS:
401..763

Additional Resources:

NCBI RefSeq record:
XM_005247138.3
NBCI Gene record:
ROPN1B (152015)

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_005247138.3, 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 TRCN0000141691 CAGGAAGTAATTGGTCCTGAT pLKO.1 689 CDS 100% 0.405 0.243 N ROPN1B n/a
2 TRCN0000427208 AGCGCTCTGGGAGTTACTATT pLKO_005 506 CDS 100% 13.200 6.600 Y ROPN1 n/a
3 TRCN0000417004 ATCTCCCAACAGATCTGTTTA pLKO_005 417 CDS 100% 13.200 6.600 Y ROPN1 n/a
4 TRCN0000048596 CCAGTTTCTCTACACGTATAT pLKO.1 607 CDS 100% 13.200 6.600 Y ROPN1 n/a
5 TRCN0000140466 GAGATCGAGTGGCTGAAGTTT pLKO.1 470 CDS 100% 5.625 2.813 Y ROPN1B n/a
6 TRCN0000141183 CAGATGTGGAAAGTGGTGAAT pLKO.1 398 5UTR 100% 4.950 2.475 Y ROPN1B n/a
7 TRCN0000142665 CAGCAGGATGCTAAACTACAT pLKO.1 664 CDS 100% 4.950 2.475 Y ROPN1B n/a
8 TRCN0000141860 GAATCTCCCAACAGATCTGTT pLKO.1 415 CDS 100% 4.950 2.475 Y ROPN1B n/a
9 TRCN0000139110 CCAGATGTGGAAAGTGGTGAA pLKO.1 397 5UTR 100% 4.050 2.025 Y ROPN1B n/a
10 TRCN0000142211 GAGCTGTTAAAGATCCTGCAT pLKO.1 332 5UTR 100% 2.640 1.320 Y ROPN1B n/a
11 TRCN0000142494 GCTAACACCTGAGCTGTTAAA pLKO.1 322 5UTR 100% 1.320 0.660 Y ROPN1B 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_005247138.3, 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_13284 pDONR223 100% 100% 100% None n/a
2 ccsbBroad304_13284 pLX_304 0% 100% 100% V5 n/a
3 TRCN0000478753 CCTGCACTCTGCGGAGAACTGCCG pLX_317 100% 100% 100% V5 n/a
4 ccsbBroadEn_03456 pDONR223 100% 54.7% 53.7% None (many diffs) n/a
5 ccsbBroad304_03456 pLX_304 0% 54.7% 53.7% V5 (many diffs) n/a
6 TRCN0000469769 TCGGCTGCCCCAACCTTCTTTAAG pLX_317 64.7% 54.7% 53.7% V5 (many diffs) n/a
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