Sequence
atgc intronic sequence ATGC exonic sequencegtaaggccttttctgttaattgtagatgaacttggaaaattattgtgatataacttggttagttgttcaatatgtcatattattgagacccaacaacttgtcatgttttataaatatttctgaacttcttttttaaatccttgtttctatttattcagGCATATGTGCAACAACTAGAGAGCAGTAGGTTGAAACTGATATCGCCAGCAG
Basic information
species | Glycine max |
transcript | GLYMA03G28400.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G28400.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os07g48820.2 (Oryza sativa), 3'ss of exon 5
gtaaggccttttctgttaattgtagatgaacttggaaaattattgtgatataacttggttagttgttcaatatgtcatattattgagacccaacaacttgtcatgttttataaatatttctgaacttcttt--tttaaatccttgtttctatttattcagGCATATGTGCAACAACTAGAGAGCAGTAGGTTGAAACTGATATCGCCAG--CAG------------------------
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-----------------------------------------------------ttaagtcaaatatgaatcaagtttaattgtttaatt---gcagtttttagtg----atagttagttttgatccaccatgacatgtattttctctttgaacatttaagGCATATGTGCAACAACTAGAGAGCAGTAAGCTGAAGCTTGCACAGCTAGAGCAGGAACTTCAGAAAGCTCGTCAGCAG
upper sequence: GLYMA03G28400.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G174284_T01 (Zea mays), 3'ss of exon 5
gtaaggccttttctgttaattgtagatgaacttggaaaattattgtgatataacttggtta-gttgttcaatatgtcatattattgagacccaacaacttgtcatgttttataaatatttctgaacttcttttttaaatccttgtttctatttattcagGCATATGTGCAACAACTAGAGAGCAGTAGGTTGAAACTGATATCGCCAGCAG---------------------------
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---------------------------------------------------aactggattatgtagattgaagtgt-gtccactagttttttgttcactt-tcaggtttatt---tatttgctatatgccccttctaatatttattgttttcaa---agGCATATGTGCAACAACTAGAGAGCAGCAAGCTAAAACTTGCAA-GCCTGGAGCAAGAACTCCAGAAAGCTCGACAACAG
upper sequence: GLYMA03G28400.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G056099_T01 (Zea mays), 3'ss of exon 5
gtaaggccttttctgttaattgtagatgaacttggaaaattattgtgatataacttggttagttgttcaatatgtcatattattgagacccaacaacttgtcatgttttataaatatttctgaacttcttttttaaatccttgtttctatttattcagGCATATGTGCAACAACTAGAGAGCAGTAGGTTGAAACTGATATCGCCAGCAG---------------------------
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--------------------------------------------------cggattatgtagat-tgaagtgtgtccaatagtttttctttgttcactt-tcaggtttatt---tatttgctaaaagccctttctaatatttattgttttcaa---agGCATATGTGCAACAGCTAGAGAGCAGTAAGCTAAAACTTGCAA-GCCTGGAGCAAGAACTCCAGAAAGCTCGACAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttttataaatatttctgaacttcttttttaaatccttgtttctatttattcagGCATATGTGCAACAACTAGAGAGCAGTAGGTTGAAACTGATATCGCCAGCAG
tccttgtttctattt CT-rich tract
tataaatatttctgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggccttttctgttaattgtagatgaacttggaaaattattgtgatataacttggttagttgttcaatatgtcatattattgagacccaacaacttgtcatgttttataaatatttctgaacttcttttttaaatccttgtttctatttattcagGCATATGTGCAACAACTAGAGAGCAGTAGGTTGAAACTGATATCGCCAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG