Sequence
atgc intronic sequence ATGC exonic sequencegtaatttttttttaatagtagcaatagcataagatatggctatggtttaacttatttgaatagggaatttgcagCAACTGCTTTTGGACAAAATTTAAAGTTGGAGCCTCTCAAGCCTGAGAAGAAGGCTATGTGGAAAAGAGAAATGAATTGTCTTCTATCTGTGTGTGATTA
Basic information
species | Glycine max |
transcript | GLYMA03G01560.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G01560.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G00460.1 (Arabidopsis thaliana), 3'ss of exon 3
---------gtaattttttttta-atagtagcaatagcataagatatggctatggtttaact--tatttgaatagggaat--ttgcagCAACTGCTTTTGGACAAAATTTAAAGTTGGAGCCTCTCAAGCCTGAGAAGAAGGCTATGTGGAAAAGAGAAATGAATTGTCTTCTATCTGTGTGTGATTA
||| | || | |||| | || | | | | | || || | || || | | | ||| ||||||| || | |||||||| ||| | | ||| ||||| | | | ||||||| || ||||||| |||||||||||||||||| ||||||| || |||||
gtaaagccattaagcatcattcacatagagcctatgctcttgttttagacaactgtaaaaatgatacttcatttgataatgtttgcagCTACAGTGTTTGGACAGAATCTGAGGTTAGAGCCGTTAGAAACAGAGAAGAGAGCATTGTGGAAGAGAGAAATGAATTGTCTTTTATCTGTATGCGATTA
upper sequence: GLYMA03G01560.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G01700.1 (Arabidopsis thaliana), 3'ss of exon 2
--------------------gtaatttttttttaatagtagcaatag--cataagatatggctatggtttaacttatttgaatagggaatttgcagCAACTGCTTTTGGACAAAATTTAAAGTTGGAGCCTCTCAAGCCTGAGAAGAAGGCTATGTGGAAAAGAGAAATGAATTGTCTTCTATCTGTGTGTGATTA
| | |||| | | | | || ||| || | ||| | | ||||| | | ||||||||| |||| ||||||||| ||| ||| || || || | || ||| ||||| | | |||||| |||||||||||||| ||||| ||||||||||| ||
gtaactaaacactaatacgcctcacagttttgtgactttcaaactaagccatctagagaaactgtagttaatgtcttttgattttgagatttgcagCTACTGTTTTTGGACAGAATCTAAGATTAGAACCATTGGAGATAGAGCAGAAGACGACGTGGAAGAGAGAAATGAATTGCCTTCTCTCTGTGTGTGACTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcaatagcataagatatggctatggtttaacttatttgaatagggaatttgcagCAACTGCTTTTGGACAAAATTTAAAGTTGGAGCCTCTCAAGCCTGAGAAGAAGGCTATGTGGAAAAGAGAAATGAATTGTCTTCTATCTGTGTGTGATTA
gtttaac putative branch site (score: 3)
tttaacttatttgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttttttttaatagtagcaatagcataagatatggctatggtttaacttatttgaatagggaatttgcagCAACTGCTTTTGGACAAAATTTAAAGTTGGAGCCTCTCAAGCCTGAGAAGAAGGCTATGTGGAAAAGAGAAATGAATTGTCTTCTATCTGTGTGTGATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA