Sequence
atgc intronic sequence ATGC exonic sequence...tattgctacttataaatatcttaaatgtcattttatgtcattcttgtgtggcatctctatgaagtaatctttcaattgactattgatatgctacttgcagATCTTTGATTTATTTGATGTCAAGAAGCTTGGAGTCGTTGACTTCGAAGACTTTGTCAGATCTCTCAATGTTTTCCACCCAAATGCTTCATTAAAAGACA
Basic information
species | Glycine max |
transcript | GLYMA17G15900.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G15900.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G47100.1 (Arabidopsis thaliana), 3'ss of exon 4
tattgctacttataaatatcttaaatgtcattttatgtcattcttgtgtggcatctctatgaagtaatctttcaattgactattgata----tgctacttgcagATCTTTGATTTATTTGATGTCAAGAAGCTTGGAGTCGTTGACTTCGAAGACTTTGTCAGATCTCTCAATGTTTTCCACCCAAATGCTTCATTAAAAGACA
| | || ||| | |||| || | | || | || | | | | || | || | || || | || || || | | || ||||| ||||||||||||||||| || || || |||| || | ||||||||| ||||| |||||||||||||| || |||||||| || | || |
----gtaaattctaagtttctttggc----cttagtaactttgtagttagtcgtaacgatta-gttctattataagtagttaatggtaatgctcttttttccagATATTTGATTTATTTGATGTTAAACGAAAAGGCGTAATTGATTTTGGAGACTTTGTGAGATCACTCAATGTTTTCCATCCTAATGCTTCCCTAGAGGAGA
upper sequence: GLYMA17G15900.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G17615.2 (Arabidopsis thaliana), 3'ss of exon 3
------tattgctacttataaatatcttaaatgtcattttatgtcattcttgtgtggcatctctatgaagtaatctttcaattgactattgatatgctacttgcagATCTTTGATTTATTTGATGTCAAGAAGCTTGGAGTCGTTGACTTCGAAGACTTTGTCAGATCTCTCAATGTTTTCCACCCAAATGCTTCATTAAAAGACA
| || | ||| | | || |||| || || | | | | | | || | | | || | | | | | | |||||| |||||| | |||||||| || |||||| | || |||| |||||||| ||||| ||||||||||||||||| |||||||| || ||||||
gtaaaatcttaattcttcaggcttttacaagattcatcttctggaagagtgatctaa-accaagataatatgtccattatcctaaacaatattgc-ttttccgcagATATTTGATATGTTTGATGTTAAACGAAAAGGAGTCATCGATTTCGGGGACTTTGTAAGATCACTCAATGTTTTCCACCCCAATGCTTCTCTAGAAGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtggcatctctatgaagtaatctttcaattgactattgatatgctacttgcagATCTTTGATTTATTTGATGTCAAGAAGCTTGGAGTCGTTGACTTCGAAGACTTTGTCAGATCTCTCAATGTTTTCCACCCAAATGCTTCATTAAAAGACA
tattgat putative branch site (score: 3)
tattgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattgctacttataaatatcttaaatgtcattttatgtcattcttgtgtggcatctctatgaagtaatctttcaattgactattgatatgctacttgcagATCTTTGATTTATTTGATGTCAAGAAGCTTGGAGTCGTTGACTTCGAAGACTTTGTCAGATCTCTCAATGTTTTCCACCCAAATGCTTCATTAAAAGACA
- -tgctact
- - - - - - - - - - - - - - - - - - gtcattc
- - - - - - - - - - - - - - - - - - - - - - tgtgtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatatg