Transcript: Human XM_011514312.3

PREDICTED: Homo sapiens small nuclear ribonucleoprotein U11/U12 subunit 48 (SNRNP48), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
SNRNP48 (154007)
Length:
4005
CDS:
59..1015

Additional Resources:

NCBI RefSeq record:
XM_011514312.3
NBCI Gene record:
SNRNP48 (154007)

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_011514312.3, 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 TRCN0000418460 ACGCCATGATAACCAATATAC pLKO_005 1048 3UTR 100% 13.200 18.480 N SNRNP48 n/a
2 TRCN0000434870 TTCGTAGTTGAGGAGACAAAG pLKO_005 494 CDS 100% 10.800 15.120 N SNRNP48 n/a
3 TRCN0000142131 GCCACTTTCGAGTACAGCTAA pLKO.1 3735 3UTR 100% 4.950 6.930 N SNRNP48 n/a
4 TRCN0000122317 CCTGGCAGAAGTACGAGATTA pLKO.1 628 CDS 100% 13.200 10.560 N SNRNP48 n/a
5 TRCN0000141602 CCAGTCCTATAGAGCCAAGAA pLKO.1 661 CDS 100% 4.950 3.960 N SNRNP48 n/a
6 TRCN0000145317 CCAAGAATGTTCACATAACCA pLKO.1 675 CDS 100% 3.000 2.400 N SNRNP48 n/a
7 TRCN0000145479 GTTGTGATATGTCCATACGAT pLKO.1 158 CDS 100% 3.000 2.400 N SNRNP48 n/a
8 TRCN0000425285 AGCGCTCTGATTCTCAAATTA pLKO_005 519 CDS 100% 15.000 10.500 N SNRNP48 n/a
9 TRCN0000435882 GACTCACAATTCCAGATAATT pLKO_005 332 CDS 100% 15.000 10.500 N SNRNP48 n/a
10 TRCN0000426923 GTGATTCGAGATGTGATAAAT pLKO_005 713 CDS 100% 15.000 10.500 N SNRNP48 n/a
11 TRCN0000428019 CAGTCTGGTGGAAGCTATTTG pLKO_005 839 CDS 100% 13.200 9.240 N SNRNP48 n/a
12 TRCN0000431332 GGAAAGACACCATAGTCATAA pLKO_005 973 CDS 100% 13.200 9.240 N SNRNP48 n/a
13 TRCN0000414903 ACGGTTTGTTTGTGATCTAAC pLKO_005 445 CDS 100% 10.800 7.560 N SNRNP48 n/a
14 TRCN0000412705 CACATGCCTAAATCATCTTTG pLKO_005 188 CDS 100% 10.800 7.560 N SNRNP48 n/a
15 TRCN0000427355 CTGATCGTCTTGCCCTCTATG pLKO_005 471 CDS 100% 10.800 7.560 N SNRNP48 n/a
16 TRCN0000426513 GGAAGAACTCAGCAATCATTG pLKO_005 742 CDS 100% 10.800 7.560 N SNRNP48 n/a
17 TRCN0000121812 GATACCTTCGATTACTTTGAA pLKO.1 307 CDS 100% 5.625 3.938 N SNRNP48 n/a
18 TRCN0000141231 CCTGTGTGTCAGTTGTGCATT pLKO.1 2198 3UTR 100% 4.950 3.465 N SNRNP48 n/a
19 TRCN0000143858 CCAAAGTTCTAACAGCGAGTA pLKO.1 1724 3UTR 100% 4.050 2.835 N SNRNP48 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_011514312.3, 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_09704 pDONR223 100% 93.8% 93.8% None 89_90ins63 n/a
2 ccsbBroad304_09704 pLX_304 0% 93.8% 93.8% V5 89_90ins63 n/a
3 TRCN0000468574 ATCTGGCTAATGGAGCTGCTTCCC pLX_317 39.4% 93.8% 93.8% V5 89_90ins63 n/a
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