Sequence
atgc intronic sequence ATGC exonic sequence...tggttgacccgcaggtgtgctaattatacttgtcttaaatgggcccagattgacatatgttgtgttctgcaaaattaatatgtattttaattttctccagGAAGTTCCAGGAATGGGATTTCACATTTCACAACCAGGGTCATCAGTTGCTACATCACTTATTGATGGAGAATCAAAGCCGAAGCATGTACTTCTTCTGG
Basic information
species | Glycine max |
transcript | GLYMA12G34750.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G34750.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g54340.1 (Oryza sativa), 3'ss of exon 9
tggttgacccgcaggtgtgctaattatacttgtcttaaatgggcccagattgacatatgttgtgttctgcaaaattaatatgtattttaattttctccagGAAGTTCCAGGAATGGGATTTCACATTTCACAACCAGGGTCATCAGTTGCTACATCACTTATTGATGGAGAATCAAAGCCGAAGCATGTACTTCTTCTGG
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----------------gtaatgacttggattttatttgatt--tcttttttaaaaaataacgtgaa-tatgcacttgtcatatgatc-aattgtttatagGAGGTACCTGGGATGGGTTTTCACATCACTCAACCAGGCTCATCAGTTGCAACCTCCCTGATTGATGGTGAAGCAAAACCAAAGCATGTTCTCTTGTTAG
upper sequence: GLYMA12G34750.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G54260.1 (Arabidopsis thaliana), 3'ss of exon 9
-tggttgacccgcaggtgtgctaattatacttgtcttaaatgggcccagattgacatatgttgtgttctgcaaaattaatatgtattttaattttctccagGAAGTTCCAGGAATGGGATTTCACATTTCACAACCAGGGTCATCAGTTGCTACATCACTTATTGATGGAGAATCAAAGCCGAAGCATGTACTTCTTCTGG
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gtccatgaaaaatttgatttttggagttattgcatttaaataagagtgagccacaatgttacttgcctctttgagctaaaagctat--taaacttttgaagGAGGTATCTGGAATGGGCTTCCACATCACACAACCAGGATCTTCTGTGGCAACATCACTTATTGATGGGGAATCGAAGCCAAAACATGTTCTTCTCTTAG
upper sequence: GLYMA12G34750.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 8
tggttgacccgcaggtgtgctaattatacttgtcttaaatgggcccagattgacatatgttgtgttctgcaaaattaatatgtattttaattttctccagGAAGTTCCAGGAATGGGATTTCACATTTCACAACCAGGGTCATCAGTTGCTACATCACTTATTGATGGAGAATCAAAGCCGAAGCATGTACTTCTTCTGG
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---gtggcac-caaatat-ttatttgtttttttctataact--catgactttacttttgctacagtatctca---ttggaggtcgttttgctttgaacagGAGGTTGCAGGTATGGGTTTCCACATTACCCAACCAGGCTCTTCCATTGCAACATCACTGATTGATGGAGAGTCAAAGCCGAAGCATGTACTACTTTTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagattgacatatgttgtgttctgcaaaattaatatgtattttaattttctccagGAAGTTCCAGGAATGGGATTTCACATTTCACAACCAGGGTCATCAGTTGCTACATCACTTATTGATGGAGAATCAAAGCCGAAGCATGTACTTCTTCTGG
ttttaat putative branch site (score: 3)
ttttaattttctcc CT-rich tract
ttctgcaaaattaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggttgacccgcaggtgtgctaattatacttgtcttaaatgggcccagattgacatatgttgtgttctgcaaaattaatatgtattttaattttctccagGAAGTTCCAGGAATGGGATTTCACATTTCACAACCAGGGTCATCAGTTGCTACATCACTTATTGATGGAGAATCAAAGCCGAAGCATGTACTTCTTCTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - acccgca
- - - - - - - gtgtgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgca