Sequence
atgc intronic sequence ATGC exonic sequencegtaaatattgtagtcttttaattgagtgaattgctagattcatattctctgttatttgaagttttattgattgtgagtactttttctgctttccctttttaagGATTCCTTTGAAGATGATAAGTCAAAAATTCTAATGATACTATGTGCAAGTCCTGATCCTAAGGAGATACACAAGACAATCTCTACACTTGAATATGGGG
Basic information
species | Glycine max |
transcript | GLYMA20G34970.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G34970.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g56540.1 (Oryza sativa), 3'ss of exon 4
gtaaatattgtagtcttttaattgagtgaattgctagattcatattctctgttatttgaagttttattgattgtgagtactttttctgctttccct---ttttaagGATTCCTTTGAAGATGATAAGTCAAAAATTCTAATGATACTATGTGCAAGTCCTGATCCTAAGGAGATACACAAGACAATCTCTACACTTGAATATGGGG
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-------gtacaagattctaaaatttcacattcctcgatacaaatt---tatactgtaaaattaaagctgctaacgtaatgcctacgatcttccatgaattttcagGATTCATTTGAGGATGACAAATCAAAAATCTTGATGATTCTCTGTGCAAGTCCTGACCCAAAGGAATTGCACAAGACAGTTTCTACATTGGAGTATGGTG
upper sequence: GLYMA20G34970.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G14330.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaaatattgtagtcttttaattgagtgaattgctagattcatattctctgttatttgaagtt-ttattgattgtgagtactttttctgctttccctttttaagGATTCCTTTGAAGATGATAAGTCAAAAATTCTAATGATACTATGTGCAAGTCCTGATCCTAAGGAGATACACAAGACAATCTCTACACTTGAATATGGGG
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gtgaa-attcttgttccattgttttatcttctggaaaat--gttttacgtgttgcttggttttcttgaagatatttagtgttgtttctattctctgaatgca-gGACTCTTTTGAAGATGACAAGTCAAAGATTCTAATGATCCTGTGTGCGAGCCCGGATCCAAAGGAAATGCACAAGACTCTCTGTACTCTAGAGTATGGGG
upper sequence: GLYMA20G34970.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv05s0049g01350.t01 (Vitis vinifera), 3'ss of exon 4
gtaaatattgt----agtcttttaa--ttgagtgaattgctagattcatattctctgttatttgaagttttattgattgtgagtactttttctgctttccctttttaagGATTCCTTTGAAGATGATAAGTCAAAAATTCTAATGATACTATGTGCAAGTCCTGATCCTAAGGAGATACACAAGACAATCTCTACACTTGAATATGGGG
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gtaaattccattcctagtaccgcaaattttagtggtttacatgttccat--tttacatttttctgtgtgatgtttaatttctgaaaaatttgtatttgtttttgttaagGATTCGTTCGAAGATGATAAATCAAAAATTTTAATGATATTATGTGCAAGCCCTGATCCCAAGGAGATACACAAGACAATCTCCACCCTTGAGTATGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgttatttgaagttttattgattgtgagtactttttctgctttccctttttaagGATTCCTTTGAAGATGATAAGTCAAAAATTCTAATGATACTATGTGCAAGTCCTGATCCTAAGGAGATACACAAGACAATCTCTACACTTGAATATGGGG
tattgat putative branch site (score: 3)
tactttttctgctttc putative PPT
atttgaagttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatattgtagtcttttaattgagtgaattgctagattcatattctctgttatttgaagttttattgattgtgagtactttttctgctttccctttttaagGATTCCTTTGAAGATGATAAGTCAAAAATTCTAATGATACTATGTGCAAGTCCTGATCCTAAGGAGATACACAAGACAATCTCTACACTTGAATATGGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT