Transcript: Human XM_017000898.2

PREDICTED: Homo sapiens single stranded DNA binding protein 3 (SSBP3), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
SSBP3 (23648)
Length:
1914
CDS:
615..1451

Additional Resources:

NCBI RefSeq record:
XM_017000898.2
NBCI Gene record:
SSBP3 (23648)

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_017000898.2, 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 TRCN0000016298 GACAACATCTACACAATGATT pLKO.1 1158 CDS 100% 5.625 4.500 N SSBP3 n/a
2 TRCN0000423911 TTTCAAGTCAGTGACCAGAAA pLKO_005 1688 3UTR 100% 4.950 3.960 N SSBP3 n/a
3 TRCN0000016300 TCCTCCAGGAACACCCATTAT pLKO.1 1106 CDS 100% 13.200 9.240 N SSBP3 n/a
4 TRCN0000016299 CCTAACAACATAAGTGGCATT pLKO.1 1326 CDS 100% 4.050 2.835 N SSBP3 n/a
5 TRCN0000016301 CGACAATTATTCTCCAAGCAT pLKO.1 1415 CDS 100% 3.000 2.100 N SSBP3 n/a
6 TRCN0000434095 TGTCATTATCCAGGAGCTGGT pLKO_005 1527 3UTR 100% 2.160 1.512 N SSBP3 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_017000898.2, 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_14092 pDONR223 100% 73.2% 1.4% None 1_222del;229delC n/a
2 ccsbBroad304_14092 pLX_304 0% 73.2% 1.4% V5 (not translated due to prior stop codon) 1_222del;229delC n/a
3 TRCN0000474142 ACATGGTAAGTTCTGCATGAAACC pLX_317 77.1% 73.2% 1.4% V5 (not translated due to prior stop codon) 1_222del;229delC n/a
4 ccsbBroadEn_02823 pDONR223 100% 71.6% 71.6% None 0_1ins330 n/a
5 ccsbBroad304_02823 pLX_304 0% 71.6% 71.6% V5 0_1ins330 n/a
6 TRCN0000466186 GTGGGGAATAAAGAACGGCAATAT pLX_317 29.8% 71.6% 71.6% V5 0_1ins330 n/a
7 ccsbBroadEn_02824 pDONR223 98.5% 66.4% 66.4% None 0_1ins330;115_174del n/a
8 ccsbBroad304_02824 pLX_304 0% 66.4% 66.4% V5 (not translated due to prior stop codon) 0_1ins330;115_174del n/a
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