Sequence
atgc intronic sequence ATGC exonic sequence...gaagtaaattgatatgatactattcattcaaataaaatgtcattttaacattgttcctaaattcgggggtgccaatgatatactacttaatgttggtcagATGAGCACATACTCCTCAATGGATGGAATTCTTTATTGCAAGACACATTTTGAACAGCTTTTCAAGGAATCTGGAAATTTCAGCAAGAACTTTG
Basic information
species | Glycine max |
transcript | GLYMA03G01590.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G01590.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G61230.1 (Arabidopsis thaliana), 3'ss of exon 1
gaagtaaattgatatgatactattcattcaaataaaatgtcattttaacattgttcctaaattcgggggtgccaatgatata-ctacttaatgttggtcagATGAGCACATACTCCTCAATGGATGGAATTCTTTATTGCAAGACACATTTTGAACAGCTTTTCAAGGAATCTGGAAATTTCAGCAAGAACTTTG------
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-------------------gtatctatctatcttccttttcctccattgttccctcatgaaaaaaaaaacacaaagagaacatctttcttctccttttcagATATGTAACTACTCATCCATGGATGGAGTTTTGTATTGCAAGACCCATTTTGAACAGCTCTTCAAAGAATCTGGAAATTTCAGCAAGAATTTCCAAACAG
upper sequence: GLYMA03G01590.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G45800.1 (Arabidopsis thaliana), 3'ss of exon 1
gaagtaaattgatatgatactattcattcaaataaaatgtcatttt--aacattgttcctaaattcgggggtgccaatgatatactacttaatgttggtcagATGAGCACATACTCCTCAATGGATGGAATTCTTTATTGCAAGACACATTTTGAACAGCTTTTCAAGGAATCTGGAAATTTCAGCAAGAACTTTG------
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---gtatttctcttttcttcttcttcctccattgttactctgtttttcgacaatgcttcattgttttaaaagaccac--atctttt-cttaaca-----cagATAAGCAATTACTCATCAATGGATGGAGTTCTTTACTGTAAGCCACACTTCGAACAGCTTTTCAAAGAATCTGGCAATTACAGCAAGAATTTTCAGGCAG
upper sequence: GLYMA03G01590.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G01780.1 (Arabidopsis thaliana), 3'ss of exon 1
gaagtaaattgatatgatactattcattcaaataaaatgtcattttaacattgttcctaaattcgggggtgccaatgatata-ctacttaatgttggtcagATGAGCACATACTCCTCAATGGATGGAATTCTTTATTGCAAGACACATTTTGAACAGCTTTTCAAGGAATCTGGAAATTTCAGCAAGAACTTTG------
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---------------------gtgcactcattactcattttcttgttagatc-ttctatgatcatattatatcaacaatttatctatgtgttgatgg-cagATGAGCAACTATTCCTCCATGGACGGAGTTTTGTACTGCAAGACTCATTTTGAGCAACTCTTCAAGGAATCTGGCAATTTCAGCAAAAACTTTCAACCAG
upper sequence: GLYMA03G01590.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv15s0046g03370.t01 (Vitis vinifera), 3'ss of exon 1
------------gaagtaaattgatatgatactattcattcaaataaaatgtcattttaacattgttcctaaattcgggggtgccaatgatata-ctacttaatgttggt---cagATGAGCACATACTCCTCAATGGATGGAATTCTTTATTGCAAGACACATTTTGAACAGCTTTTCAAGGAATCTGGAAATTTCAGCAAGAACTTTG------
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gtatgtttcttctaagcctatttttcccctgtt-tttttttttttttggtaaatttttacgaaaatcaatatctacgtaaatttatgagatataacaagtgggttttactttgcagATGAGCAACTACTCATCCATGGATGGGGTCCTCTACTGCAAACCTCATTTTGAGCAGCTGTTCAAGGAGTCTGGCAATTTCAGCAAGAATTTTCAAACAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taacattgttcctaaattcgggggtgccaatgatatactacttaatgttggtcagATGAGCACATACTCCTCAATGGATGGAATTCTTTATTGCAAGACACATTTTGAACAGCTTTTCAAGGAATCTGGAAATTTCAGCAAGAACTTTG
atatactacttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaagtaaattgatatgatactattcattcaaataaaatgtcattttaacattgttcctaaattcgggggtgccaatgatatactacttaatgttggtcagATGAGCACATACTCCTCAATGGATGGAATTCTTTATTGCAAGACACATTTTGAACAGCTTTTCAAGGAATCTGGAAATTTCAGCAAGAACTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - -tgatatg
- - - - - - - - - - - ttcattc
- - - - - - - - - - - - - - -aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaatga