Sequence
atgc intronic sequence ATGC exonic sequence...caatacaaaaagaaattttgtgtgatacattataacaattatataatcgaattagaaataatctattttctatattcaatttgatttgttcttttttcagTCTCTCTGGCAACAAGGGATTGTGCGGCGTACCATCTCTTCCATCATGTCCTATGTTTTGGGAGCATGGTAGATTATCCACTCGGGGTAAAATTGCAATA
Basic information
species | Glycine max |
transcript | GLYMA20G32720.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G32720.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G25570.1 (Arabidopsis thaliana), 3'ss of exon 7
------------------------caatacaaaaagaaattttgtgtgatacattataacaatta---tataatcgaattagaaataatctattttctatattcaattt------gatttgt-tcttttttcagTCTCTCTGGCAACAAGGGATTGTGCGGCGTACCATCTCTTCCATCATGTCCTATGTTTTGGGAGCATGGTAGATTATCCACTCGGGGTAAAATTGCAATA
| | || || |||| | | ||| | |||| | || | || |||| || | || | || || | | || || ||||||| |||||| ||||| ||||| ||| | ||||| |||||||||||||| ||||||| | || |||||| |||| ||||||| |||||||||| || |||
gtacgttaatgtcgaatgtccacatatgataataatcttttttcttttataagtgataaaattttaccttccttctcattatccatggctttgttctttgatccattatctcaataatctgcatctttttacagTCTTTCTGGAAACAAAGGACTATGCGGTGTACCATCTCTTCCGACATGTCCACTATTATGGGAGAATGGCCACTTATCCAAAGGGGGTAAAATAGCCATA
upper sequence: GLYMA20G32720.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv01s0011g03060.t01 (Vitis vinifera), 3'ss of exon 7
---caatacaaaaagaaattttgtgtgatacattataacaattatataatcgaattagaaataatctattttctatattcaatttgatttgttcttttttcagTCTCTCTGGCAACAAGGGATTGTGCGGCGTACCATCTCTTCCATCATGTCCTATGTTTTGGGAGCATGGTAGATTATCCACTCGGGGTAAAATTGCAATA
| | | || | || | ||| || | | | | | || | || | | || || | | | |||| | | |||||||||||| ||||| || ||||| || || || |||| |||||||||||| |||| ||||| ||||| || ||||||||| | |||||||||| |||
tgctactgtagcaatatcggttcttctataaatcttt-tgaaagcacagtttttttcattgtcatttctctttattaatgagctcaattt--ttcatgaccagTCTCTCTGGTAACAAAGGCTTGTGTGGTGTTTCACCTCTGCCATCATGTCCTTTGTTCTGGGACCATGGCAGCTTATCCACTGGTGGTAAAATTGGAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcgaattagaaataatctattttctatattcaatttgatttgttcttttttcagTCTCTCTGGCAACAAGGGATTGTGCGGCGTACCATCTCTTCCATCATGTCCTATGTTTTGGGAGCATGGTAGATTATCCACTCGGGGTAAAATTGCAATA
atttgat putative branch site (score: 5)
tttgttcttttttc CT-rich tract
attagaaataatctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caatacaaaaagaaattttgtgtgatacattataacaattatataatcgaattagaaataatctattttctatattcaatttgatttgttcttttttcagTCTCTCTGGCAACAAGGGATTGTGCGGCGTACCATCTCTTCCATCATGTCCTATGTTTTGGGAGCATGGTAGATTATCCACTCGGGGTAAAATTGCAATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
caataca
- - - - aaagaaa
- - - - - - - - - tgtgtga
- - - - - - - - - - - - - - - - - - - - - - - - - - -agaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatttg