Pregenerated sensors for HBB-BS (Mus musculus)

Ensembl gene IDs: ENSMUSG00000052305

Ensembl transcript IDs: ENSMUST00000023934.8

Found 8 sensor candidate(s). Results are sorted by "preference number" (better first), and then by GC (higher first).

Type	Sensor	Details
3UTR CAA 90 bp	TTTCAAATGTCTTTATCATTTTGCCAACAACTGACAGATGCTCTCTaGGGAACAATTAACCATTGTTCACAGGCAAGAGCAGGAAAGGGG	+
Preference number: 2 (lower is better) Translates to: FQMSLSFCQQLTDAL*GTINHCSQARAGKG Trigger: CCCCTTTCCTGCTCTTGCCTGTGAACAATGGTTAATTGTTCCCAAGAGAGCATCTGTCAGTTGTTGGCAAAATGATAAAGACATTTGAAA 41% GC, longest homopolymer 4 nt, total homopolymer stretches 4 nt. Matches the following 1 transcripts: ENSMUST00000023934.8
3UTR TCA 72 bp	CAGATTTTCAAATGTCTTTATCATTTTGCCAACAACTaGCAGATGCTCTCTTGGGAACAATTAACCATTGTT	+
Preference number: 3 (lower is better) Translates to: QIFKCLYHFANN*QMLSWEQLTIV Trigger: AACAATGGTTAATTGTTCCCAAGAGAGCATCTGTCAGTTGTTGGCAAAATGATAAAGACATTTGAAAATCTG 35% GC, longest homopolymer 4 nt, total homopolymer stretches 8 nt. Matches the following 1 transcripts: ENSMUST00000023934.8
CDS-3UTR GCA 90 bp	CTGACAGATGCTCTCTTGGGAACAATTAACCATTGTTCACAGGCAAGAGCAGGAAGACAACCAGCAGCCTaGCCAGGGCCTCACCACCAA	+
Preference number: 4 (lower is better) Translates to: LTDALLGTINHCSQARAGRQPAA*PGPHHQ Trigger: TTGGTGGTGAGGCCCTGGGCAGGCTGCTGGTTGTCT...TCCTGCTCTTGCCTGTGAACAATGGTTAATTGTTCCCAAGAGAGCATCTGTCAG 52% GC, longest homopolymer 3 nt, total homopolymer stretches 0 nt. Matches the following 1 transcripts: ENSMUST00000023934.8
CDS-3UTR TCA 90 bp	ACAGATTTTCAAATGTCTTTATCATTTTGCCAACAACTGACAGATGCTCTCTTGTGGCAAAGGTGCCCTTaGGGCTGTCCAAGTGATTCA	+
Preference number: 4 (lower is better) Translates to: TDFQMSLSFCQQLTDALLWQRCP*GCPSDS Trigger: TGAATCACTTGGACAGCCTCAAGGGCACCTTTGCCA...CAAGAGAGCATCTGTCAGTTGTTGGCAAAATGATAAAGACATTTGAAAATCTGT 42% GC, longest homopolymer 4 nt, total homopolymer stretches 8 nt. Matches the following 1 transcripts: ENSMUST00000023934.8
3UTR CAA 72 bp	TCTTTATCATTTTGCCAACAACTGACAGATGCTCTCTaGGGAACAATTAACCATTGTTCACAGGCAAGAGCA	+
Preference number: 4 (lower is better) Translates to: SLSFCQQLTDAL*GTINHCSQARA Trigger: TGCTCTTGCCTGTGAACAATGGTTAATTGTTCCCAAGAGAGCATCTGTCAGTTGTTGGCAAAATGATAAAGA 40% GC, longest homopolymer 4 nt, total homopolymer stretches 4 nt. Matches the following 1 transcripts: ENSMUST00000023934.8
CDS TCA 72 bp	CCACCACCTTCTGGAAGGCAGCCTGTGCAGCGGGGGTaGAATCCTTGCCCAGGTGGTGGCCCAGCACAATCA	+
Preference number: 6 (lower is better) Translates to: PPPSGRQPVQRG*NPCPGGGPAQS Trigger: TGATTGTGCTGGGCCACCACCTGGGCAAGGATTTCACCCCCGCTGCACAGGCTGCCTTCCAGAAGGTGGTGG 62% GC, longest homopolymer 5 nt, total homopolymer stretches 5 nt. Matches the following 1 transcripts: ENSMUST00000023934.8
CDS CAA 72 bp	TTCTGGAAGGCAGCCTGTGCAGCGGGGGTGAAATCCTaGCCCAGGTGGTGGCCCAGCACAATCACGATCATA	+
Preference number: 6 (lower is better) Translates to: FWKAACAAGVKS*PRWWPSTITII Trigger: TATGATCGTGATTGTGCTGGGCCACCACCTGGGCAAGGATTTCACCCCCGCTGCACAGGCTGCCTTCCAGAA 58% GC, longest homopolymer 5 nt, total homopolymer stretches 5 nt. Matches the following 1 transcripts: ENSMUST00000023934.8
CDS CAA 72 bp	TTGCCCAGGTGGTGGCCCAGCACAATCACGATCATATaGCCCAGGAGCCTGAAGTTCTCAGGATCCACATGC	+
Preference number: 6 (lower is better) Translates to: LPRWWPSTITII*PRSLKFSGSTC Trigger: GCATGTGGATCCTGAGAACTTCAGGCTCCTGGGCAATATGATCGTGATTGTGCTGGGCCACCACCTGGGCAA 56% GC, longest homopolymer 3 nt, total homopolymer stretches 0 nt. Matches the following 1 transcripts: ENSMUST00000023934.8

---

If you would like us to post a table for your organism of interest, or have questions, please reach out to eerik at stanford dot edu or xjgao at stanford.edu