Sequence
atgc intronic sequence ATGC exonic sequence...aggtgtttaatgaactgcatattatctctgttgggagaacttaaaatggattttcttaatgtatcgtgcttcaaaattaacttcttctataaccttcaagGTTCAAAGTTGGATCAACAGTGGCTTGAGGGACTTTTCCATTTCCCGAGCATCAGTTGATTGGGGCATTCCTGTTCCCGATGACAAGACCCAGACTATAT
Basic information
species | Glycine max |
transcript | GLYMA10G43550.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G43550.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G55400.1 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------------aggtgtttaatgaactgcatatta-tctctgttgggagaactta-----------aaatggattttcttaatgta--tcgtgctt-caaaattaacttct-----tctataaccttcaagGTTCAAAGTTGGATCAACAGTGGCTTGAGGGACTTTTCCATTTCCCGAGCATCAGTTGATTGGGGCATTCCTGTTCCCGATGACAAGACCCAGACTATAT
| || || | | ||||| | | || || || | | ||| | | || ||| ||| | || || | ||| | ||| |||| ||| | || |||| ||||||||||| || |||||||| || || ||||||||||| ||||||| ||| |||||||| |||||||||||||| ||| | | || || ||||
gtgagacacattctttgaagttctcttccttgtagcattcaa-gtagtgcatgtgaacctttggtgatacagattattcaaaagaaaacagagagttttttattatagctcattctttcttaatccttttctaatagtctctttttttgtagGTACAAAGTTGGATAAAGAGTGGCTTAAGAGATTTTTCCATTTCTCGAGCATTAGTGGATTGGGGAATTCCTGTTCCCGACGACGATAAGCAAACCATAT
upper sequence: GLYMA10G43550.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0019g00810.t01 (Vitis vinifera), 3'ss of exon 4
aggtgtttaatgaactgcatattatctctgttgggagaacttaaaatggattttcttaatg-tatcgtgcttcaaaat-taacttcttctataa---ccttcaagGTTCAAAGTTGGATCAACAGTGGCTTGAGGGACTTTTCCATTTCCCGAGCATCAGTTGATTGGGGCATTCCTGTTCCCGATGACAAGACCCAGACTATAT
|| | | | ||| | || || ||| | | | ||| | | ||||| || | ||||| |||| || |||| |||||||||||||| ||||| ||||||| ||||| |||||||||||||| || |||||||||||||||||||| ||||||| | ||||| ||||
-----cttgaaatttaaaagacattctttaatgtattaatgtaaggttcacactaccgatgctgctttctttcaatatatcgcttctgatatagaacttctctagGTGCAAAGTTGGATCAAAAGTGGTCTGAGGGATTTTTCTATTTCCCGAGCATCTGTGGATTGGGGCATTCCTGTTCCTAATGACAACAAGCAGACCATAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggattttcttaatgtatcgtgcttcaaaattaacttcttctataaccttcaagGTTCAAAGTTGGATCAACAGTGGCTTGAGGGACTTTTCCATTTCCCGAGCATCAGTTGATTGGGGCATTCCTGTTCCCGATGACAAGACCCAGACTATAT
ccttc CT-rich tract
ttttcttaatgtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aggtgtttaatgaactgcatattatctctgttgggagaacttaaaatggattttcttaatgtatcgtgcttcaaaattaacttcttctataaccttcaagGTTCAAAGTTGGATCAACAGTGGCTTGAGGGACTTTTCCATTTCCCGAGCATCAGTTGATTGGGGCATTCCTGTTCCCGATGACAAGACCCAGACTATAT
-ggtgttt
- - - - aatgaac
- - - - - - - -tgcatat
- - - - - - - - - - - - - - tgttggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttca