Sequence
atgc intronic sequence ATGC exonic sequencegtgtgtacttaactcttgacctgcttccaatcccaagatagttttgtaccctttgctgattttgattttgatatagGCAATGGCTTCTGAGGTTCAAAATCTTCTTGTCTCTGGGAAAAAGAAGGAGGCTTTACAATGTGCACAAGAAGGACAATTGTGGGGACCTGCACTTGTTC
Basic information
species | Glycine max |
transcript | GLYMA01G41800.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G47490.1 (Arabidopsis thaliana), 3'ss of exon 3
------------------gtgtg-tacttaactcttgacc----tgcttccaatcccaagatagttttgtaccctttgctgattttgattt-tgatatagGCAATGGCTTCTGAGGTTCAAAATCTTCTTGTCTCTGGGAAAAAGAAGGAGGCTTTACAATGTGCACAAGAAGGACAATTGTGGGGACCTGCACTTGTTC
| || || ||| || | | || ||| || || || |||||| || || |||| || | | ||| || ||||| ||||| || |||||||| | ||||| | |||| ||||||| | ||||||||||||||||| || || |||||||| || ||||||
gtgagtattagacatcatatctggtatttatctttcaaggagaatgtttctaaaattaacatggttttgc-ttattaactcatttggaagaattgtccagGTAACTGCTTCAGAGGTGCAGAATCTTCTGGCTTCTGGCAGGAAGATGGAGGCTCTCCAATGTGCACAAGAAGGTCATTTATGGGGACCAGCGCTTGTTA
upper sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 4
--------------------------------gtgtgtacttaactcttgacctgcttccaatcccaagata-gttttgtaccctttgctgattttga--ttttgatatagGCAATGGCTTCTGAGGTTCAAAATCTTCTTGTCTCTGGGAAAAAGAAGGAGGCTTTACAATGTGCACAAGAAGGACAATTGTGGGGACCTGCACTTGTTC
| | | | | || ||| ||| | || || || | || | | | || | ||| | |||| | ||| ||| || || || |||||||||||||| | ||| |||||||||||| ||||||| |||||| ||||| |||||||||||||||||||
gtagatatacatctgctacttagtctcttccaatatttccagaggcaatg-cctatttctttttgaaatttaagtaccaccttttgtgttaaatatgcattcttgctgcagGCTACTGCTCTTGAAGTACAGAAGCTTCTTGTCTCTGGTAGAAAAAAGGAGGCTTTAGGATGTGCAATAGAAGGTCAATTATGGGGACCTGCACTTGTTC
upper sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 3
---gtgtgtacttaactcttgacctgcttccaatcccaagatagttttgtaccctttgctg---attttgattt-tgatatagGCAATGGCTTCTGAGGTTCAAAATCTTCTTGTCTCTGGGAAAAAGAAGGAGGCTTTACAATGTGCACAAGAAGGACAATTGTGGGGACCTGCACTTGTTC
| || || ||| | || | | | | ||||| || || | || | || | || | ||||||| |||||||| || || | |||||| || ||||| | |||||| |||||| |||| |||||||||||||| || |||||||||||||| |||||||
gtattccgtgattcactttccacacttcagtatttctattcgcaatttgtccctttagtaataaatgtcaatatatgttttagGCAACTGCTTCTGAAGTACAGAGTCTTCTGGTTTCTGGTAGAAAGAAAGAGGCTCTACATTGTGCACAAGAAGGGCAGTTGTGGGGACCTGCCCTTGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcttccaatcccaagatagttttgtaccctttgctgattttgattttgatatagGCAATGGCTTCTGAGGTTCAAAATCTTCTTGTCTCTGGGAAAAAGAAGGAGGCTTTACAATGTGCACAAGAAGGACAATTGTGGGGACCTGCACTTGTTC
attttgattttgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgtacttaactcttgacctgcttccaatcccaagatagttttgtaccctttgctgattttgattttgatatagGCAATGGCTTCTGAGGTTCAAAATCTTCTTGTCTCTGGGAAAAAGAAGGAGGCTTTACAATGTGCACAAGAAGGACAATTGTGGGGACCTGCACTTGTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG