Sequence
atgc intronic sequence ATGC exonic sequenceGACCATCAAAGTCCGAGTTACAAACAAGGGAGTGATGAGAAATTACAAAAACGCTAGGGGTGAAGGATGTGTCTTCAATGTTGAACTAACAGATGAAGAAgtaagaaagctccttactatctctcaaacttggtatagacaacctttatgcggtttctcattttgtttatttggctgttatccag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G61000.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G61000.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA17G08660.1 (Glycine max), 5'ss of exon 4
GACCATCAAAGTCCGAGTTACAAACAAGGGAGTGATGAGAAATTACAAAAACGCTAGGGGTGAAGGATGTGTCTTCAATGTTGAACTAACAGATGAAGAAgtaagaaa-gctccttactatctctcaaacttgg-tatagacaacctt----tatgcggtttctcat-tttgtttatttggctgttatccag
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GACAATAAAGGTTAGCGTTACGAGCAAAGGGAACATGCGTAACTATAAAAATGCTAGGGGTGATGGTTGTGTCTTCAATGTCGAATTGACGGATGAAGATgtaagaattgttgtgtatttgttttggaatgtgaatgttgtcttgcttgttatgtgtggagggtgatgtttttttgttttgaaattttccag
upper sequence: AT5G61000.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G00370.2 (Glycine max), 5'ss of exon 4
GACCATCAAAGTCCGAGTTACAAACAAGGGAGTGATGAGAAATTACAAAAACGCTAGGGGTGAAGGATGTGTCTTCAATGTTGAACTAACAGATGAAGAAgtaagaaagctcct-tactatctctcaaacttgg-tatag----acaacctttatgcggtttctcattttgttt-atttggctgttatccag
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GACAATAAAGGTTAGCGTTACGAGCAAAGGGAACATGCGTACCTATAAGAATGCTAGGGGTGATGGTTGCGTCTTCAATGTTGAATTGACGGATGAAGATgtaagaattattgtgtatttattttggaatttgaatgttgtcttgcatgttaaatctggagggtgatgtcgttttgttttgaaattttccagMapped 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|124937109|gb|EL013923.1|EL013923EST: TTGAACTAACAGATGAAGAA GGAACACAAATTCAAGCAACGATGTTTAATGATGCTGCAAGGAAGTTTTTT
genomic: TTGAACTAACAGATGAAGAAgtaagaaagc ... tgttatccagGGAACACAAATTCAAGCAACGATGTTTAATGATGCTGCAAGGAAGTTTTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GACCATCAAAGTCCGAGTTACAAACAAGGGAGTGATGAGAAATTACAAAAACGCTAGGGGTGAAGGATGTGTCTTCAATGTTGAACTAACAGATGAAGAAgtaagaaagctccttactatctctcaaacttggtatagacaacctttatgcggtttctcattttgtttatttggctgttatccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA