Sequence
atgc intronic sequence ATGC exonic sequence...cttgggtgctatggggttttgttttgaggggattgttcgtttttcaagtggggatctgaagggttgttaaaagttggatctttttcatttgggtttgcagATTAGAACTCACTCTATTAGGAAGGCTCATGAGAATATTGATAGGACTTCGAAGGTTGCGGAGGTTATATTGGCTCACTTCGATCAATATCGTCAG
Basic information
species | Glycine max |
transcript | GLYMA20G33590.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G33590.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G03540.2 (Arabidopsis thaliana), 3'ss of exon 1
-------cttgggtgctatggggttttgttttgaggggattgt----------tcgtttttcaa----gtggggatctgaagggttgttaaaagttggatct--ttttcatttgggtttgcagATTAGAACTCACTCTATTAGGAAGGCTCATGAGAATATTGATAGGACTTCGAAGGTTGCGGAGGTTATATTGGCTCACTTCGATCAATATCGTCAG----
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gtgtggtttagagtgctccgatcatcttctctgattgttttctaatccagatctggtattatagctctatggagttttgctgacttgatcggattttggtttgactgtgttttgaaatctcagATTAGGACTCATGCTATAAGGAAAGCTCATGAGAATATTGATAGGACTCTTAAGGCTGCTGAAGTTATTTTGTCTCAATTCGATCTCCTCCGTCAGGTTT
upper sequence: GLYMA20G33590.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G03540.3 (Arabidopsis thaliana), 3'ss of exon 1
-------cttgggtgctatggggttttgttttgaggggattgt----------tcgtttttcaa----gtggggatctgaagggttgttaaaagttggatct--ttttcatttgggtttgcagATTAGAACTCACTCTATTAGGAAGGCTCATGAGAATATTGATAGGACTTCGAAGGTTGCGGAGGTTATATTGGCTCACTTCGATCAATATCGTCAG
| | ||||| | | | | ||| | || | | || || | ||| | | || | ||| | | || | | | | | |||| | |||||||| ||||| |||| ||||| |||||||||||||||||||||||| |||| ||| || ||||| ||| |||| ||||||| ||||||
gtgtggtttagagtgctccgatcatcttctctgattgttttctaatccagatctggtattatagctctatggagttttgctgacttgatcggattttggtttgactgtgttttgaaatctcagATTAGGACTCATGCTATAAGGAAAGCTCATGAGAATATTGATAGGACTCTTAAGGCTGCTGAAGTTATTTTGTCTCAATTCGATCTCCTCCGTCAG
upper sequence: GLYMA20G33590.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0073g00170.t01 (Vitis vinifera), 3'ss of exon 1
cttgggtgctatggggttttgttttgaggggattgttcgtttttcaagtggggatctgaagggttgttaaaag-ttggatctttttcatttgggttt-gcagATTAGAACTCACTCTATTAGGAAGGCTCATGAGAATATTGATAGGACTTCGAAGGTTGCGGAGGTTATATTGGCTCACTTCGATCAATATCGTCAG
| || || ||| | | || | | | |||| || | || || | || | | || ||| ||| ||||||||||| || |||||| | | ||||||||||||||||| | ||||| ||||| ||| ||||||||||||||||| ||||| | |||||||||
-cggaacttgatttggcttt-tcccccttatctcgtgggatctctgagtgccaatgggttggcttttccttttcttacggttgctaaatctggattttacagATTAGAACGCATTCTATTCGAAGAGCTCATGAGAATATTGACAAGACTTTGAAGGCTGCCGAGGTTATATTGGCTCAATTCGACCTTTATCGTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtggggatctgaagggttgttaaaagttggatctttttcatttgggtttgcagATTAGAACTCACTCTATTAGGAAGGCTCATGAGAATATTGATAGGACTTCGAAGGTTGCGGAGGTTATATTGGCTCACTTCGATCAATATCGTCAG
tttttcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgggtgctatggggttttgttttgaggggattgttcgtttttcaagtggggatctgaagggttgttaaaagttggatctttttcatttgggtttgcagATTAGAACTCACTCTATTAGGAAGGCTCATGAGAATATTGATAGGACTTCGAAGGTTGCGGAGGTTATATTGGCTCACTTCGATCAATATCGTCAG
-ttgggtg
- - - - - - ggggttt
- - - - - - - - - - - - tgagggg
- - - - - - - - - - - - - - - - - - - - - - - -gtgggga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggttgt