Sequence
atgc intronic sequence ATGC exonic sequence...atgtgaaaagtggtgttattgattagaaaaaaataggttactgatagttgaatgttccaaagaaaaaaagtattttatatcttctatttggtgcatgcagGTACTGGCTGACATAATTGATTTACCCTGTCGAATTGCCAAAGGATGTAAATATTGTAATAGAGACGATGCCGCTTCGTGCCTTGTCAGGTTTGGGCTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G03730.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G03730.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA03G34890.1 (Glycine max), 3'ss of exon 4
---------------------------------------------------------------------atgtgaaaagtggtgttattgattagaaaaaaataggttactgatagttgaatgttccaaagaaaaaaagt-attttatatcttctatttggtgcatgcagGTACTGGCTGACATAATTGATTTACCCTGTCGAATTGCCAAAGGATGTAAATATTGTAATAGAGACGATGCCGCTTCGTGCCTTGTCAGGTTTGGGCTTG
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gtaatacttgaattctatgtgatggtcaaggctgtgattatgcattttgactatattattattatctttttaatgggagtggtggtggtggaggaatttcagtggtttaatacaagataaggtctttgtgttgtttttgtgatgacatgctttattcatgatatattcagGTACTAGCTGACACCATTGATTTGCCTTGTCGAATTGCTAAGGGCTGTAAATATTGTTCAAGAGATGATGCCTCCTCATGTCTTGTTCGATTTGGACTTG
upper sequence: AT5G03730.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G07610.1 (Glycine max), 3'ss of exon 4
----------------------atgtgaaaagtggtgttattgattagaaaaaaataggttactgatagttgaatgt-tccaa----agaaaaaaagtattttatat-------cttctatttggtgcatgcagGTACTGGCTGACATAATTGATTTACCCTGTCGAATTGCCAAAGGATGTAAATATTGTAATAGAGACGATGCCGCTTCGTGCCTTGTCAGGTTTGGGCTTG
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gtaaggctctactttcctttggctttttaaggctatgattatgcatgttaacttgtttttgtttgctagtttagtacatgcaattgtatttaagttgttttttaaatgacttgctttatattcaatattttcagGTACTAGCTGACGCCATTGATTTACCATGTCGAATTGCTAAGGGCTGTAAATATTGCAAAAGGGATGATGCTTCATCTTGTCTTGTTCGATTTGGGATTG
upper sequence: AT5G03730.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA13G21480.1 (Glycine max), 3'ss of exon 3
----------------------atgtgaaaagtggtgttattgattagaaaaaaataggttactgatagttgaatgt-tccaa----agaaaaaaagtattttatat-------cttctatttggtgcatgcagGTACTGGCTGACATAATTGATTTACCCTGTCGAATTGCCAAAGGATGTAAATATTGTAATAGAGACGATGCCGCTTCGTGCCTTGTCAGGTTTGGGCTTG
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gtaaggctctacttttctttggccttttaaggctatgattatgcatgttgacttgtttttgtttgctggcttagtacatgcaattgtatataagttgttttttaaatgacttgctttatattcaatattttcagGTACTAGCTGACGCCATTGATTTACCATGTCGAATTGCTAAGGGCTGTAAATATTGCAAAAGGGATGATGCTACATCTTGTCTTGTTCGATTTGGGCTTGMapped 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|116475867|gb|EG518459.1|EG518459EST: TAGGTAGCCTCTCTGTTGGACTCTGCAGACATCGAGCTTTACTCTTCAAA GTACTGGCTGACATAATTGATTTACCCTGTCGAATTGCCAAAGGATGTAAA
genomic: TAGGTAGCCTCTCTGTTGGACTCTGCAGACATCGAGCTTTACTCTTCAAAgtgagatccc ... gtgcatgcagGTACTGGCTGACATAATTGATTTACCCTGTCGAATTGCCAAAGGATGTAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttgaatgttccaaagaaaaaaagtattttatatcttctatttggtgcatgcagGTACTGGCTGACATAATTGATTTACCCTGTCGAATTGCCAAAGGATGTAAATATTGTAATAGAGACGATGCCGCTTCGTGCCTTGTCAGGTTTGGGCTTG
aaagaaaaaaagtatt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtgaaaagtggtgttattgattagaaaaaaataggttactgatagttgaatgttccaaagaaaaaaagtattttatatcttctatttggtgcatgcagGTACTGGCTGACATAATTGATTTACCCTGTCGAATTGCCAAAGGATGTAAATATTGTAATAGAGACGATGCCGCTTCGTGCCTTGTCAGGTTTGGGCTTG
- - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - ttccaaa