Sequence
atgc intronic sequence ATGC exonic sequenceAGATGAGGTTAGACTATCACCAGAAGCCAAGGATCTTATTTGTAGGCTTTTATGCAATGTTGAACAAAGGCTTGGAACAAAAGGAGCAGATGAAATTAAGgtgttgtatgcgttgttcaactttgagattcaaagttcccttatgtaagatcattgtgtgcaattcttaaaaacgatttgactggtttctttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G14350.3 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA10G00830.1 (Glycine max), 5'ss of exon 8
AGATGAGGTTAGACTATCACCAGAAGCCAAGGATCTTATTTGTAGGCTTTTATGCAATGTTGAACAAAGGCTTGGAACAAAAGGAGCAGATGAAATTAAGgtgttgtatgcgttgttcaactttgagattcaaagttcccttatgtaagatcattgt-gtgcaattcttaaaaacgatttgactggtttctt--tcag
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AGAAGAAGCTAAACTTTCAGCAGAGGCAAAGGATCTTATTTGTAGACTCCTATGTAATGTGGAGCAGAGGCTTGGAACCAAAGGAGCTGATGAAATAAAGgtgttgtg-gtgt-gttcttttttaagttctacagtt----tatacaggaatacactagtatagtaaccaataagtggttggtcatttttgtgtccag
upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA20G35110.1 (Glycine max), 5'ss of exon 8
AGATGAGGTTAGACTATCACCAGAAGCCAAGGATCTTATTTGTAGGCTTTTATGCAATGTTGAACAAAGGCTTGGAACAAAAGGAGCAGATGAAATTAAGgtgttgtatgcgttgttcaactttgagattcaaagttcccttatgtaagatcattgtgtgcaattcttaaaaacgatttgactggtttctttcag
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AGAAGAAGTTAAAATTTCGGCAGAAGCAAAGGATCTTATTAGTAGACTCCTATGTAATGTGGATCAGAGGCTTGGAACCAAAGGGGCTGATGAAATAAAGgtgttgtg-gtgt-gttcttttctgaattctataatttactt-tgggttacagttgcatattaactgcataactggccggtcta-ttatttccag
upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA10G32480.1 (Glycine max), 5'ss of exon 8
AGATGAGGTTAGACTATCACCAGAAGCCAAGGATCTTATTTGTAGGCTTTTATGCAATGTTGAACAAAGGCTTGGAACAAAAGGAGCAGATGAAATTAAGgtgttgtatgcgttgttcaactttgagattcaaagttcccttatgtaagatcattgtgtgcaattcttaaaaacgatttgactggtttctttcag
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AGAAGAAGTTAAACTTTCGGCAGAAGCAAAGGATCTTATTAGTAGACTCCTATGTAATGTGGACCAGAGGCTTGGAACCAAAGGGGCTGATGAAATAAAGgtgttgtg-gtgt-gttcttttctgaattctataatttactt-tgggttacagttacatattaacaacataactggttggtcta-ttatttccag
upper sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv05s0049g01220.t01 (Vitis vinifera), 5'ss of exon 8
AGATGAGGTTAGACTATCACCAGAAGCCAAGGATCTTATTTGTAGGCTTTTATGCAATGTTGAACAAAGGCTTGGAACAAAAGGAGCAGATGAAATTAAGgtgttgtatgcgttgttcaactttgagattcaaagttcccttatgtaagatcattgtgtgcaattcttaaaaacg-atttgactggtttctttcag
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AGAAGAAGCAAAGTTATCTCCAGAAGCAAAGGACCTTATTAGTAAGCTCTTATGTAATGTTGACCAGAGGCTTGGAACTAAAGGGGCAGATGAAATAAAGgtgttgtgtggtgtgttcaattctgaattactggatttggtt---cacaatggaattacaaagtgaggaataatgtggttggctctgtaaattcagMapped 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|116396686|gb|EG439278.1|EG439278EST: TATGCAATGTTGAACAAAGGCTTGGAACAAAAGGAGCAGATGAAATTAAG GGTCACCCTTGGTTTAGAGGCACAGAATGGGGAAAATTGTATCAAATGAAA
genomic: TATGCAATGTTGAACAAAGGCTTGGAACAAAAGGAGCAGATGAAATTAAGgtgttgtatg ... tttctttcagGGTCACCCTTGGTTTAGAGGCACAGAATGGGGAAAATTGTATCAAATGAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATGAGGTTAGACTATCACCAGAAGCCAAGGATCTTATTTGTAGGCTTTTATGCAATGTTGAACAAAGGCTTGGAACAAAAGGAGCAGATGAAATTAAGgtgttgtatgcgttgttcaactttgagattcaaagttcccttatgtaagatcattgtgtgcaattcttaaaaacgatttgactggtttctttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG