Sequence
atgc intronic sequence ATGC exonic sequenceATCAAACATGCCTGACGGGCAACCAAAATGGCTTCTCTCTATTATTCCGGGATACCCTATGCTCAATTTCATGCTGACAACTGCTATATACGTCCTTgtaagaaaccgtaacttcttctctccccgtattttctattagcaagctttctgaaacatctctatttgttcttgttcgccag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G46340.1 |
intron # | 15 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G46340.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: LOC_Os01g44040.1 (Oryza sativa), 5'ss of exon 14
ATCAAACATGCCTGACGGGCAACCAAAATGGCTTCTCTCTATTATTCCGGGATACCCTATGCTCAATTTCATGCTGACAACTGCTATATACGTCCTTgtaag----aaaccgtaacttcttctctccccgtattttctat-tagcaagctttctgaaacatctctatttgttcttgttcgccag--
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GTCTAACATGCCTAACGGGCAGCCAAAATGGCTTCTCTCTTTCATTCCGGGTTACCCACTGCTCAACTTTATGCTTGCTACAGCAATATATCTTCTTgtaagtaaaaaagaaaaactgaattccttattttaattccaatataactagagttgccaggaatatttatttgattgtcaacactgcag
upper sequence: AT5G46340.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA05G25780.1 (Glycine max), 5'ss of exon 15
ATCAAACATGCCTGACGGGCAACCAAAATGGCTTCTCTCTATTATTCCGGGATACCCTATGCTCAATTTCATGCTGACAACTGCTATATACGTCCTTgtaagaaaccgtaacttcttctctccccgtatt-----ttctattag----caagctttctgaaa--catctctatttgttct--tgttcgccag--------------------------
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GTCTAACATGCCAAACGGACAGCCCAAGTGGCTTCTTTCTCTTATCCCGGAGTATCCTATGCTCAACTTCATGCTAACAACTGCTATATACGTCTTTgtaaggatctttcttctttcctttgtttatttttcttattttattaatattcaagtctcatgaaaggcatcatagtaagttgcactttttgcttgcactgctatcttgacatggtttgcag
upper sequence: AT5G46340.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA08G08730.1 (Glycine max), 5'ss of exon 15
ATCAAACATGCCTGACGGGCAACCAAAATGGCTTCTCTCTATTATTCCGGGATACCCTATGCTCAATTTCATGCTGACAACTGCTATATACGTCCTTgtaagaaac--cgtaacttcttc--tctccccgtattttctattag--------caagctttctgaaacatctc-tatttgttcttgttcgccag-----------------------------
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GTCTAACATGCCAAACGGACAGCCCAAGTGGCTTCTTTCTCTTATCCCGGAGTATCCTATGCTCAACTTCATGCTAACAACTGCTATATACGTCTTTgtaaggatcttctttccttctttcatttgtttatttttcttattaattaatattcaagtcttatgaaaggcatcatactaagttgcactttttacatgcactgctatcttgacatggtttgcagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|86086940|gb|DR382699.1|DR382699EST: CGGGATACCCTATGCTCAATTTCATGCTGACAACTGCTATATACGTCCTT GTATCTCACCGTCTCTTTGAACTAACCAACACACTCAAGACGGTTTTYGTA
genomic: CGGGATACCCTATGCTCAATTTCATGCTGACAACTGCTATATACGTCCTTgtaagaaacc ... tgttcgccagGTATCTCACCGTCTCTTTGAACTAACCAACACACTCAAGACGGTTTTCGTA
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATCAAACATGCCTGACGGGCAACCAAAATGGCTTCTCTCTATTATTCCGGGATACCCTATGCTCAATTTCATGCTGACAACTGCTATATACGTCCTTgtaagaaaccgtaacttcttctctccccgtattttctattagcaagctttctgaaacatctctatttgttcttgttcgccag
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