Transcript: Human XM_011532360.3

PREDICTED: Homo sapiens ubiquitin specific peptidase 38 (USP38), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
USP38 (84640)
Length:
7534
CDS:
535..3561

Additional Resources:

NCBI RefSeq record:
XM_011532360.3
NBCI Gene record:
USP38 (84640)

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_011532360.3, 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 TRCN0000038834 CGTCTAATACTATGACTGTTA pLKO.1 3596 3UTR 100% 4.950 6.930 N USP38 n/a
2 TRCN0000298710 CGTCTAATACTATGACTGTTA pLKO_005 3596 3UTR 100% 4.950 6.930 N USP38 n/a
3 TRCN0000038835 GCCTTCAAGTACAGCCTTCTT pLKO.1 1533 CDS 100% 4.950 6.930 N USP38 n/a
4 TRCN0000298712 GCCTTCAAGTACAGCCTTCTT pLKO_005 1533 CDS 100% 4.950 6.930 N USP38 n/a
5 TRCN0000038838 CCCTATCTATTAAGTTCCGTT pLKO.1 2947 CDS 100% 2.640 3.696 N USP38 n/a
6 TRCN0000038837 GCATCATTTGAACCTTCTGTA pLKO.1 1219 CDS 100% 4.950 3.465 N USP38 n/a
7 TRCN0000298763 GCATCATTTGAACCTTCTGTA pLKO_005 1219 CDS 100% 4.950 3.465 N USP38 n/a
8 TRCN0000038836 CCAGAGATTCTTACTGGTGAT pLKO.1 2614 CDS 100% 4.050 2.835 N USP38 n/a
9 TRCN0000298773 CCAGAGATTCTTACTGGTGAT pLKO_005 2614 CDS 100% 4.050 2.835 N USP38 n/a
10 TRCN0000030877 CCCAATGGATTTGATGACAAT pLKO.1 3463 CDS 100% 4.950 3.465 N Usp38 n/a
11 TRCN0000327299 CCCAATGGATTTGATGACAAT pLKO_005 3463 CDS 100% 4.950 3.465 N Usp38 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_011532360.3, 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_09209 pDONR223 100% 96.6% 96.7% None 946_947ins102;1335T>C;2487G>A n/a
2 ccsbBroad304_09209 pLX_304 0% 96.6% 96.7% V5 946_947ins102;1335T>C;2487G>A n/a
3 TRCN0000474563 AGACACGTTATGTGACCCGCTCCC pLX_317 13.7% 96.6% 96.7% V5 946_947ins102;1335T>C;2487G>A n/a
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