Sequence
atgc intronic sequence ATGC exonic sequence...aatttgaccccctatgtgtgtcttatcatgtaaagtaccacatgacttatatattattaatattagactaactgttttttgacattttcttttgttttagACAACTTATGAGAATTTTCGGTACCGCTACGATAAGAAGGAAAATCCATTCACAAAAGGAATATGGACAAACTTCAAAGAACTTTCTTGTGCTAAGATCC
Basic information
species | Glycine max |
transcript | GLYMA03G27420.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G27420.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G05070.1 (Arabidopsis thaliana), 3'ss of exon 3
aatttgaccccctatgtgtgtcttatcatgtaaagtaccacatgacttatatattattaatattagactaactgttttttgacattttcttttgttttagACAACTTATGAGAATTTTCGGTACCGCTACGATAAGAAGGAAAATCCATTCACAAAAGGAATATGGACAAACTTCAAAGAACTTTCTTGTGCTAAGATCC
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--gtacattccttacctttatcataggaccacaactaaatctt--tttagcttgctttagcctt---ctgagt-tttcttgtgttgtgtctgttttgcagACAACATATGAGAATTTCCGGTACCGTTATGATAAGAAAGAAAATCCTTACAAGAGAGGGTTACTGAAGAATGTTAAAGAAGTACTATTTGCCAAGATCC
upper sequence: GLYMA03G27420.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G56920.1 (Arabidopsis thaliana), 3'ss of exon 4
aatttgaccccctatgtgtgtcttatcatgtaaagtaccacatgacttatatat---tattaatattagactaactgttttttgacattttcttttgttttagACAACTTATGAGAATTTTCGGTACCGCTACGATAAGAAGGAAAATCCATTCACAAAAGGAATATGGACAAACTTCAAAGAACTTTCTTGTGCTAAGATCC
| || | || | || | || | | | ||| | || | || | | | || | | |||| |||| |||| ||||||||||||||||| ||||| ||||||||||| || | | ||| || || | |||||||| || || | | ||| || || |
-------------------gcaagattctttagcttttaacgtagtttccaagtagcttttactgttggtctgattctcttgttatgttttgc--------agACGACTTGTGAGAATTTTCGGTACCATTACGACAAGAAGGAAAACCCTTACCGAAAGGGGATCTTAGAGAACTTCAAGGAGCTATTCTTTGCAAAAATTC
upper sequence: GLYMA03G27420.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0040g00370.t01 (Vitis vinifera), 3'ss of exon 4
--------------------------------------------------aatttgacc----ccctatgtgtgtcttatcatgtaaagtaccacatgacttatatattattaatattagactaactgttttttgacattttcttttgttttagACAACTTATGAGAATTTTCGGTACCGCTACGATAAGAAGGAAAATCCATTCACAAAAGGAATATGGACAAACTTCAAAGAACTTTCTTGTGCTAAGATCC
|| | | || ||| ||||| || || | | | | | | | | | || | |||| | | || | | || ||| ||| ||||| | ||||||||||||||||||| ||||||||||| |||||||| ||||||||| | || || ||| || ||||||| |||| || || || ||||| |
gtaaccttctttctcaacttgctacttccattatttagaaactagatgtggatccaaacaaggccttatttgtgtgtt-tcttattacattctgcttcctgtctgtagttctaat-tcatacctagtccattctgatctttgcttttttcacagACAACTTATGAGAATTTCCGGTACCGCTATGATAAGAATAAAAATCCATATAATAAGGGGATACTGAAGAACTTCATAGAATTTGGTTTTGGGAAGATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttatatattattaatattagactaactgttttttgacattttcttttgttttagACAACTTATGAGAATTTTCGGTACCGCTACGATAAGAAGGAAAATCCATTCACAAAAGGAATATGGACAAACTTCAAAGAACTTTCTTGTGCTAAGATCC
cattttcttttgtttt CT-rich tract
atattattaatattag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatttgaccccctatgtgtgtcttatcatgtaaagtaccacatgacttatatattattaatattagactaactgttttttgacattttcttttgttttagACAACTTATGAGAATTTTCGGTACCGCTACGATAAGAAGGAAAATCCATTCACAAAAGGAATATGGACAAACTTCAAAGAACTTTCTTGTGCTAAGATCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - -cccccta
- - - - - - - tgtgtgt
- - - - - - - - - - - - - catgtaa
- - - - - - - - - - - - - - - - - - - -acatgac