Sequence
atgc intronic sequence ATGC exonic sequenceTGACAATGCTTTTGAGAATTCATCCCCTGATTATTTACCTTTCGAGTTTAGAGCTCTTGAAATAGCCCTTGAAGCTGCTTGTACGTTTCTCGATTCCCAGgttagtaacactttagcttcgattttgtttccccctcagaaaatatagactaatattgggcttggatttgactactacacgctaagttgatttaattttatccttctctatag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G16010.3 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G16010.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA13G44820.1 (Glycine max), 5'ss of exon 2
TGACAATGCTTTTGAGAATTCATCCCCTGATTATTTACCTTTCGAGTTTAGAGCTCTTGAAATAGCCCTTGAAGCTGCTTGTACGTTTCTCGATTCCCAGgttagtaacactttagcttcgattttgtttccccctcagaaaatatagactaatattgggcttggattt--gactactacacgctaagttgattta-attttatccttctctatag
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CGAAAATGTATTTAGTAACTCTTCCCCTGATTATTTACCTTTTGAGTTCAGGGCTCTTGAAGTTGCCCTGGAGGCGGCATGCACATTTCTGGATTCCCAGgttagtagaagtagatagttaagtc---------------aaaggttaacttatgttgattttttattttaaattattcctcatttctttctttagtaatttattatagactata-
upper sequence: AT1G16010.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G00510.1 (Glycine max), 5'ss of exon 2
TGACAATGCTTTTGAGAATTCATCCCCTGATTATTTACCTTTCGAGTTTAGAGCTCTTGAAATAGCCCTTGAAGCTGCTTGTACGTTTCTCGATTCCCAGgttagtaacactttagcttcgattttgtttccccctcagaaaatatagactaatattgggcttggatttgactactacacgctaagttgatttaattttatccttctctatag
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TGAAAACGTATTTAGCAACTCTTCCCCTGATTATTTACCTTTTGAGTTCAGGGCTCTTGAAGTTGCCCTGGAGGCAGCATGCACATTTCTTGATTCCCAGgttagtagaagtacatagttaagtcagaggct---------aacttacgttgatttt---tttaatttaaattattcttcatttctttc-tttactattaatttattatatatMapped 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|164001750|gb|ES003932.1|ES003932EST: GAAATAGCCCTTGAAGCTGCTTGTACGTTTCTCGATTCCCAG GCTTCAGAGTTGGAGATTGAGGCATACCCGTTATTAGATGAGCTTACCTCA
genomic: GAAATAGCCCTTGAAGCTGCTTGTACGTTTCTCGATTCCCAGgttagtaaca ... ttctctatagGCTTCAGAGTTGGAGATTGAGGCATACCCGTTATTAGATGAGCTTACCTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGACAATGCTTTTGAGAATTCATCCCCTGATTATTTACCTTTCGAGTTTAGAGCTCTTGAAATAGCCCTTGAAGCTGCTTGTACGTTTCTCGATTCCCAGgttagtaacactttagcttcgattttgtttccccctcagaaaatatagactaatattgggcttggatttgactactacacgctaagttgatttaattttatccttctctatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT