Transcript: Human NM_001347880.2

Homo sapiens uncharacterized LOC100289561 (LOC100289561), transcript variant 3, mRNA.

Source:
NCBI, updated 2019-06-02
Taxon:
Homo sapiens (human)
Gene:
LOC100289561 (100289561)
Length:
886
CDS:
369..677

Additional Resources:

NCBI RefSeq record:
NM_001347880.2
NBCI Gene record:
LOC100289561 (100289561)

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_001347880.2, 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 TRCN0000218389 ATGATTATCACCAAGCCAAAC pLKO_005 514 CDS 100% 6.000 3.000 Y PMS2P3 n/a
2 TRCN0000107283 CCCTGATGAGAAGATAGCATA pLKO.1 446 CDS 100% 4.950 2.475 Y PMS2P3 n/a
3 TRCN0000230061 CCAAGCCAAACATCATCATGG pLKO_005 524 CDS 100% 4.050 2.025 Y PMS2P3 n/a
4 TRCN0000107282 CCGTGGATAATGGAAGGTGAA pLKO.1 579 CDS 100% 4.050 2.025 Y PMS2P3 n/a
5 TRCN0000230062 TCATCATGGAGTGGAGGTGAA pLKO_005 536 CDS 100% 4.050 2.025 Y PMS2P3 n/a
6 TRCN0000107281 GTATGATTATCACCAAGCCAA pLKO.1 512 CDS 100% 2.640 1.320 Y PMS2P3 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_001347880.2, 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_13748 pDONR223 100% 60.1% 48% None (many diffs) n/a
2 ccsbBroad304_13748 pLX_304 0% 60.1% 48% V5 (many diffs) n/a
3 TRCN0000478241 ACATAAAACGACATGACCAGGGGC pLX_317 100% 60.1% 48% V5 (many diffs) n/a
4 ccsbBroadEn_11040 pDONR223 100% 55.5% 51.4% None (many diffs) n/a
5 ccsbBroad304_11040 pLX_304 0% 55.5% 51.4% V5 (many diffs) n/a
6 TRCN0000477902 TCACAGCCGGGTCATAGTAAATTT pLX_317 76.4% 55.5% 51.4% V5 (many diffs) n/a
7 ccsbBroadEn_08766 pDONR223 100% 12% 9.4% None (many diffs) n/a
8 ccsbBroad304_08766 pLX_304 0% 12% 9.4% V5 (many diffs) n/a
9 TRCN0000480601 CTCTGTTGAGCCCCAGAGCAGGAA pLX_317 14.5% 12% 9.4% V5 (many diffs) n/a
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