Transcript: Mouse NM_001313983.1

Mus musculus thyroid hormone receptor alpha (Thra), transcript variant 1, mRNA.

Source:
NCBI, updated 2017-06-15
Taxon:
Mus musculus (mouse)
Gene:
Thra (21833)
Length:
2491
CDS:
519..1997

Additional Resources:

NCBI RefSeq record:
NM_001313983.1
NBCI Gene record:
Thra (21833)

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 Mouse NM_001313983.1, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000020310 GTCAGGGTATATCCCTAGTTA pLKO.1 635 CDS 100% 5.625 7.875 N THRA n/a
2 TRCN0000343784 GTCAGGGTATATCCCTAGTTA pLKO_005 635 CDS 100% 5.625 7.875 N THRA n/a
3 TRCN0000020311 CAGCGAGTTTACCAAGATCAT pLKO.1 1163 CDS 100% 4.950 6.930 N THRA n/a
4 TRCN0000343721 CAGCGAGTTTACCAAGATCAT pLKO_005 1163 CDS 100% 4.950 6.930 N THRA n/a
5 TRCN0000222363 CGGTTATCACTACCGCTGTAT pLKO.1 701 CDS 100% 4.950 6.930 N Thra n/a
6 TRCN0000329601 CGGTTATCACTACCGCTGTAT pLKO_005 701 CDS 100% 4.950 6.930 N Thra n/a
7 TRCN0000020312 CAAACACAACATTCCGCACTT pLKO.1 1586 CDS 100% 4.050 5.670 N THRA n/a
8 TRCN0000020313 GTCACCAGATGGAAAGCGAAA pLKO.1 578 CDS 100% 4.050 5.670 N THRA n/a
9 TRCN0000343783 GTCACCAGATGGAAAGCGAAA pLKO_005 578 CDS 100% 4.050 5.670 N THRA n/a
10 TRCN0000222364 CCAGTCACCTATTGTCTCCAT pLKO.1 1109 CDS 100% 2.640 3.696 N Thra n/a
11 TRCN0000329602 AGCAGCATGTCAGGGTATATC pLKO_005 627 CDS 100% 13.200 9.240 N Thra n/a
12 TRCN0000337622 TAGAGGCCTTCAGCGAGTTTA pLKO_005 1153 CDS 100% 13.200 9.240 N Thra n/a
13 TRCN0000337621 ACATTGGCCAGTCACCTATTG pLKO_005 1102 CDS 100% 10.800 7.560 N Thra n/a
14 TRCN0000027080 TGCCGCTTCAAGAAGTGCATT pLKO.1 846 CDS 100% 4.950 3.465 N Thra n/a
15 TRCN0000222365 GCCATGGACTTGGTTCTAGAT pLKO.1 879 CDS 100% 4.950 2.970 N Thra 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_001313983.1, 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 TRCN0000492328 ACTGGCGTTCCAAATGCTACTAGA pLX_317 29.1% 95.6% 97.1% V5 (not translated due to prior stop codon) (many diffs) n/a
2 ccsbBroadEn_07066 pDONR223 100% 95.5% 96.9% None (many diffs) n/a
3 ccsbBroad304_07066 pLX_304 0% 95.5% 96.9% V5 (not translated due to frame shift) (many diffs) n/a
4 TRCN0000478935 CAGCACGGCCAGTTGTCAAACAGA pLX_317 27.2% 95.5% 96.9% V5 (not translated due to prior stop codon) (many diffs) n/a
5 TRCN0000489623 TGTTACCACGGAGGCGAGAACGCA pLX_317 21.1% 95.5% 96.9% V5 (many diffs) n/a
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