Sequence
atgc intronic sequence ATGC exonic sequenceCCTGAATGGATGGCTCCAGAAGTTCTACGCAATGAGCCCTCAAATGAAAAgtgagtagcttattagaagctcagttctgttcttggttctactagaaaatgttaaggcagatactactctttactttccctttccctttttttccaaggagattaaaaaaaatgttggctgtttttcgtcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G08720.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G08720.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA10G30070.1 (Glycine max), 5'ss of exon 12
CCTGAATGGATGGCTCCAGAAGTTCTACGCAATGAGCCCTCAAATGAAAAgtgagtagct--tattagaagctcagttctgttcttggttctactagaaaatgttaaggcagatactactctttactttccctttccctttttttccaaggagattaaaaaaaatgttggctgtttttcgtcag
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CCGGAATGGATGGCTCCTGAAGTTCTCCGCAATGAGCCCTCAAATGAGAAgtgagttgttattaatttaaggttt-ttttattcttgattttcatcgtcatt-tcatatcttatttgtgtaatcaatgtctgtccataattgcttcactcta--------------------------------
upper sequence: AT1G08720.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA20G37330.3 (Glycine max), 5'ss of exon 11
--------------------------------------------------CCTGAATGGATGGCTCCAGAAGTTCTACGCAATGAGCCCTCAAATGAAAAgtgagtagc---ttattagaagctcagttctgttcttggttctactagaaaatgttaaggcagatac-tactctttactttccctttccctttttttccaaggagattaaaaaaaatgttggctgtttttcgtcag
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GTCTGATCTGCATTCTCTACATTCCACTGACATGATTTTATCAATGTTAGCCGGAATGGATGGCTCCTGAAGTTCTCCGCAATGAACCCTCAAATGAGAAgtgagttgttatttatttaaggttt--ttttattcttgattttcatgtcatttcatatcttatttgtgtaatcaatgtctgtccataattgcttcactctac----------------------------------
upper sequence: AT1G08720.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA20G37330.1 (Glycine max), 5'ss of exon 12
CCTGAATGGATGGCTCCAGAAGTTCTACGCAATGAGCCCTCAAATGAAAAgtgagtagct---tattagaagctcagttctgttcttggttctactagaaaatgttaaggcagatac-tactctttactttccctttccctttttttccaaggagattaaaaaaaatgttggctgtttttcgtcag
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CCGGAATGGATGGCTCCTGAAGTTCTCCGCAATGAACCCTCAAATGAGAAgtgagttgttatttatttaaggttt--ttttattcttgattttcatgtcatttcatatcttatttgtgtaatcaatgtctgtccataattgcttcactctac----------------------------------Mapped 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|116426459|gb|EG469051.1|EG469051EST: CCTGAATGGATGGCTCCAGAAGTTCTACGCAATGAGCCCTCAAATGAAAA GTGTGATGTGTACAGTTTCGGGGTAATACTTTGGGAACTAGCAACATTGAG
genomic: CCTGAATGGATGGCTCCAGAAGTTCTACGCAATGAGCCCTCAAATGAAAAgtgagtagct ... ttttcgtcagGTGTGATGTGTACAGTTTCGGGGTAATACTTTGGGAACTAGCAACATTGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCTGAATGGATGGCTCCAGAAGTTCTACGCAATGAGCCCTCAAATGAAAAgtgagtagcttattagaagctcagttctgttcttggttctactagaaaatgttaaggcagatactactctttactttccctttccctttttttccaaggagattaaaaaaaatgttggctgtttttcgtcag
- - - - - - - - AGAAGT