Transcript: Human XM_017000996.1

PREDICTED: Homo sapiens nephrocystin 4 (NPHP4), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
NPHP4 (261734)
Length:
4729
CDS:
39..4274

Additional Resources:

NCBI RefSeq record:
XM_017000996.1
NBCI Gene record:
NPHP4 (261734)

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_017000996.1, 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 TRCN0000083165 CCGTCCAGGATCGTCTTTAAT pLKO.1 294 CDS 100% 15.000 21.000 N NPHP4 n/a
2 TRCN0000083167 GTCGCCGAGTTCTTTGAGTTT pLKO.1 2952 CDS 100% 4.950 6.930 N NPHP4 n/a
3 TRCN0000443360 TCGTTATCGCTGTTGCTCAAA pLKO_005 4557 3UTR 100% 4.950 6.930 N NPHP4 n/a
4 TRCN0000439928 ACAGAACCTGTGACGTTTAAC pLKO_005 1902 CDS 100% 13.200 9.240 N NPHP4 n/a
5 TRCN0000454173 GGGAACCACGGGACATATTTC pLKO_005 3559 CDS 100% 13.200 9.240 N NPHP4 n/a
6 TRCN0000446452 ACCAGGTCTTCCGCTTCTATC pLKO_005 3385 CDS 100% 10.800 7.560 N NPHP4 n/a
7 TRCN0000445964 GGTACTGTCAGAGGTTGAATG pLKO_005 185 CDS 100% 10.800 7.560 N NPHP4 n/a
8 TRCN0000449259 TGGAAGGAATCCACGGCATTC pLKO_005 111 CDS 100% 6.000 4.200 N NPHP4 n/a
9 TRCN0000083164 CCCGGAGATCAAAGACTTCTT pLKO.1 3602 CDS 100% 4.950 3.465 N NPHP4 n/a
10 TRCN0000453878 TCAACCTGGTGGACGTGGATT pLKO_005 3907 CDS 100% 4.950 3.465 N NPHP4 n/a
11 TRCN0000444539 GAGACCGAGCGCTGGTCATTT pLKO_005 4419 3UTR 100% 4.400 3.080 N NPHP4 n/a
12 TRCN0000083166 CCCGAGATTCTGGATGCCAAT pLKO.1 1854 CDS 100% 4.050 2.835 N NPHP4 n/a
13 TRCN0000083163 CCTGTGCACTTGGCTGAGGAA pLKO.1 4395 3UTR 100% 0.880 0.616 N NPHP4 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_017000996.1, 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_13489 pDONR223 100% 62.9% 61.9% None (many diffs) n/a
2 ccsbBroad304_13489 pLX_304 0% 62.9% 61.9% V5 (many diffs) n/a
3 TRCN0000471526 CGTCGATTATTCTCCGCATATCTA pLX_317 13.6% 62.9% 61.9% V5 (many diffs) n/a
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