Sequence
atgc intronic sequence ATGC exonic sequencegtaagctgtgttagcttataaatttgtcttattttgcttcatgttaacttctgatcgtaaaagtgaataatttgtttctgaagttgtctcatgctattatatttcctttctatgctgaaagcacagtgattttgtatgcagACACTGATGACAAGTATAGATATGAAATCAAGGACATACTTGAAATGGAAATGAAGATTTTAGAAGCGCTTAATTATTACCTGGTTGTATACCATCCATA
Basic information
species | Glycine max |
transcript | GLYMA18G33140.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G33140.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os09g32680.4 (Oryza sativa), 3'ss of exon 4
gtaagctgtgttagcttataaatttgtcttattttgcttcatgttaa-cttctgatcgtaaaagtgaataatttgtttctgaagttgtctcatgctattatatttcctttctatgctgaaagcacagtgattttgtatgcagACACTGATGACAAGTATAGATATGAAATCAAGGACATACTTGAAATGGAAATGAAGATTTTAGAAGCGCTTAATTATTACCTGGTTGTATACCATCCATA
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------------------------------------------gtaaggctcataatcataaatggacacatatttatcgggaagaactgcactaacctaaaactaaacatgtgctctccccccgcaaa--------atgtagCTTCTGATGAGAAGTACCGGTTTGAAATCAAGGATATCCTTGAAATGGAAATGAAGCTCCTGGAGGCACTTGACTATTATTTAGTTGTTTACCACCCATA
upper sequence: GLYMA18G33140.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0360g00050.t01 (Vitis vinifera), 3'ss of exon 5
gtaagctgtgttagcttataaatttgtcttattttgcttcatgttaacttctgatcgtaaaagtgaataatttgtttctgaagttgtctcatgctattatatttcctttctatgctgaaagcacagtgattttg-tatgcagACACTGATGACAAGTATAGATATGAAATCAAGGACATACTTGAAATGGAAATGAAGATTTTAGAAGCGCTTAATTATTACCTGGTTGTATACCATCCATA
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-----------------gtaatcacttgttactcagcatgatgttgaactgcggttttag-------ttctccagtcttgtggttgac-------attttatttaacgtaagaactgagtgcctgacactttccctttgcagATCCAGATGAAAAGTATAGGTATGAGATCAAGGACATACTTGAAATGGAAATGAAGATCTTAGAAGCTCTCAACTATTATTTAGTTGTATTCCATCCTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcatgctattatatttcctttctatgctgaaagcacagtgattttgtatgcagACACTGATGACAAGTATAGATATGAAATCAAGGACATACTTGAAATGGAAATGAAGATTTTAGAAGCGCTTAATTATTACCTGGTTGTATACCATCCATA
tattatatttccttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctgtgttagcttataaatttgtcttattttgcttcatgttaacttctgatcgtaaaagtgaataatttgtttctgaagttgtctcatgctattatatttcctttctatgctgaaagcacagtgattttgtatgcagACACTGATGACAAGTATAGATATGAAATCAAGGACATACTTGAAATGGAAATGAAGATTTTAGAAGCGCTTAATTATTACCTGGTTGTATACCATCCATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC