Transcript: Human XM_011535002.3

PREDICTED: Homo sapiens PDS5 cohesin associated factor B (PDS5B), transcript variant X10, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
PDS5B (23047)
Length:
4834
CDS:
260..3778

Additional Resources:

NCBI RefSeq record:
XM_011535002.3
NBCI Gene record:
PDS5B (23047)

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_011535002.3, 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 TRCN0000236222 GGTCAATGATCACTTACTTAA pLKO_005 583 CDS 100% 13.200 18.480 N PDS5B n/a
2 TRCN0000022014 GCACATAGATACCGAATCTAT pLKO.1 1264 CDS 100% 0.563 0.788 N PDS5B n/a
3 TRCN0000022017 CCGCCTGGAATGTGTGAAATT pLKO.1 418 CDS 100% 13.200 9.240 N PDS5B n/a
4 TRCN0000236218 TTACTCCTGGGCACCCTTAAT pLKO_005 4317 3UTR 100% 13.200 9.240 N PDS5B n/a
5 TRCN0000022016 CCAGAGTATGTTGTTCCATAT pLKO.1 2393 CDS 100% 10.800 6.480 N PDS5B n/a
6 TRCN0000191354 CGACATCAAGTAAAGGATTTA pLKO.1 938 CDS 100% 13.200 9.240 N Pds5b n/a
7 TRCN0000159276 GAAGAAGAAGAAAGACAAAGA pLKO.1 3413 CDS 100% 4.950 2.475 Y C1orf35 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_011535002.3, 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_11665 pDONR223 100% 16.3% 14.6% None (many diffs) n/a
2 ccsbBroad304_11665 pLX_304 0% 16.3% 14.6% V5 (many diffs) n/a
3 TRCN0000470658 CTTTTAGTCAGTTTATGCTCCCGG pLX_317 31.8% 16.3% 14.6% V5 (many diffs) n/a
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