Sequence
atgc intronic sequence ATGC exonic sequence...agccattggtttaagaaatctctgcttgtggttgttttactttgtataattttcatatattaaaaaatattaaatttctgctgtatactttatcctccagGTTGGAATTGCTGAACTTAAAACTGCTGTTGAAAGAACCGGAGGTCTTGTTGTACTTGCTGAAAGTTTTGGCCATTCAGTGTTCAAGGATTCACTAAAGC
Basic information
species | Glycine max |
transcript | GLYMA03G22740.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G22740.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G063775_T01 (Zea mays), 3'ss of exon 4
agccattggtttaagaaatctctgcttgtggttgttttactttgtataatt--ttcatatattaaaaaatattaaatttctgctgtata-ctttatcctccagGTTGGAATTGCTGAACTTAAAACTGCTGTTGAAAGAACCGGAGGTCTTGTTGTACTTGCTGAAAGTTTTGGCCATTCAGTGTTCAAGGATTCACTAAAGC
|| || | | || || | |||| | | || | | || | || || | || |||||| | | | |||| || |||||||| | |||||| | || ||| |||| | || ||||| ||||||| ||||||||||||||||| ||||| || ||||| || ||||| |
--ttatgaaaaaaaattgtttatgttt-tcattgtgtaaattgagacgtgtggttaccttgtttgcaactgatagatttcttatttgtggtcttattctatagGTTGGAGTCGCTGAAATGAAGGTTGCGATTGAGAAGACTGGAGGAATTGTTGTCCTTGCTGAAAGTTTTGGTCATTCTGTTTTCAAAGACTCACTTCTCC
upper sequence: GLYMA03G22740.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 3
agccattggtttaagaaatctctgcttgtggttgt--tttactttgtataattttcatatattaaaaaatattaaatttctgctgtatactttatcctccagGTTGGAATTGCTGAACTTAAAACTGCTGTTGAAAGAACCGGAGGTCTTGTTGTACTTGCTGAAAGTTTTGGCCATTCAGTGTTCAAGGATTCACTAAAGC
| ||| | | | | | | | | |||| | | || || || ||| || | |||| | | |||||| ||||||| || ||||||||||||||| ||| ||||| ||||| ||||| ||||||| ||||||||||||||||||||| |||| || | ||| || || || |
-ggcatgcggaggtggatttaatattaagatctatggcttacgcttgttgatggacactggttttgaaagatgttttgcatgcttttttctttatt-tccagGTGGGGGTTGCTGAACTTAAAATTGCAGTTGAGAGAACTGGAGGAATTGTTGTGCTTGCTGAAAGTTTTGGCCATGCAGTTTTTAGGGACTCTCTTAAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataattttcatatattaaaaaatattaaatttctgctgtatactttatcctccagGTTGGAATTGCTGAACTTAAAACTGCTGTTGAAAGAACCGGAGGTCTTGTTGTACTTGCTGAAAGTTTTGGCCATTCAGTGTTCAAGGATTCACTAAAGC
ctttatcctcc CT-rich tract
atatattaaaaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agccattggtttaagaaatctctgcttgtggttgttttactttgtataattttcatatattaaaaaatattaaatttctgctgtatactttatcctccagGTTGGAATTGCTGAACTTAAAACTGCTGTTGAAAGAACCGGAGGTCTTGTTGTACTTGCTGAAAGTTTTGGCCATTCAGTGTTCAAGGATTCACTAAAGC
-gccattg
- - - - - - - - - -ctctgct
- - - - - - - - - - - - - -gtggttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaat