Sequence
atgc intronic sequence ATGC exonic sequence...aatctgttttttctctcgacgtgtaaccaaacacactctatcatgttatttgaatggtggatgatgttttttgttttgtttttttatttatgaattttagGTTGTTCAAGGAGTGTCCTCATCCAGATGAAAAGCAAAGGCTTGAACTGAGTAGAAGGCTGTGTTTGGAAACTCGTCAGGTGAAGTTTTGGTTCCAAAAT
Basic information
species | Glycine max |
transcript | GLYMA03G01860.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G01860.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0048g02000.t01 (Vitis vinifera), 3'ss of exon 2
aatctgttttttctctcgacgtgtaaccaaacacactctatcatgttatttgaatggtggatgatgttttttgttttgtttttttatttatgaattttagGTTGTTCAAGGAGTGTCCTCATCCAGATGAAAAGCAAAGGCTTGAACTGAGTAGAAGGCTGTGTTTGGAAACTCGTCAGGTGAAGTTTTGGTTCCAAAAT
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-----gtatgatctgatgttccataaa-agttttagcctatttcttcgccaggttcgtgtgttatgaccga-atgttttctggttgcttttg--ttttagTCTGTTCAAGGAGTGTCCTCATCCTGATGAAAAGCAAAGGTTGGAACTCAGCAGAAGGCTTAGCTTGGAGACCAGGCAAGTGAAGTTCTGGTTCCAAAAT
upper sequence: GLYMA03G01860.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ37532 (Selaginella moellendorffii), 3'ss of exon 1
aatctgttttttctctcgacgtgtaaccaaacacactctatcatgttatttgaatggtggatgatgttttt-tgttttgtttttttatttatgaattttagGTTGTTCAAGGAGTGTCCTCATCCAGATGAAAAGCAAAGGCTTGAACTGAGTAGAAGGCTGTGTTTGGAAACTCGTCAGGTGAAGTTTTGGTTCCAAAAT
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-------------------------------------------------gtaagtactgcaagccgagagcatgatgagaacttatctttcttcgtgccagGTTGTTCAAGGAGTGTCCTCATCCCGACGATAAGCAGCGCCAGGAGCTGAGCCGGGAGCTAGGACTGGAGCCTCGGCAAGTCAAGTTCTGGTTCCAGAAT
upper sequence: GLYMA03G01860.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ34024 (Selaginella moellendorffii), 3'ss of exon 1
aatctgttttttctctcgacgtgtaaccaaacacactctatcatgttatttgaatggtggatgatgttttt-tgttttgtttttttatttatgaattttagGTTGTTCAAGGAGTGTCCTCATCCAGATGAAAAGCAAAGGCTTGAACTGAGTAGAAGGCTGTGTTTGGAAACTCGTCAGGTGAAGTTTTGGTTCCAAAAT
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-------------------------------------------------gtaagtactacaagccgagagcatgatgagaacttatctttcttcgtgccagGTTGTTCAAGGAGTGTCCTCATCCCGACGATAAGCAGCGCCAGGAGCTGAGCCGGGAGCTAGGACTGGAGCCTCGGCAAGTCAAGTTCTGGTTCCAGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatttgaatggtggatgatgttttttgttttgtttttttatttatgaattttagGTTGTTCAAGGAGTGTCCTCATCCAGATGAAAAGCAAAGGCTTGAACTGAGTAGAAGGCTGTGTTTGGAAACTCGTCAGGTGAAGTTTTGGTTCCAAAAT
atgatgttttttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatctgttttttctctcgacgtgtaaccaaacacactctatcatgttatttgaatggtggatgatgttttttgttttgtttttttatttatgaattttagGTTGTTCAAGGAGTGTCCTCATCCAGATGAAAAGCAAAGGCTTGAACTGAGTAGAAGGCTGTGTTTGGAAACTCGTCAGGTGAAGTTTTGGTTCCAAAAT
- - - - - - - - - - - - - ccaaaca
- - - - - - - - - - - - - - - - -cactcta
- - - - - - - - - - - - - - - - - - - - tcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - tggtgga