Sequence
atgc intronic sequence ATGC exonic sequencegtactccagttataatttcatagcaaatctctgcatctttctgttcaggaactggcatatttggacactcttgtttcatactgagtactgactatacagggcatctttcatatctatcccaatgcagAAACGTTTGTGAGAGCGGATGGTGCCTTTATTCCTTTTGCAGAAGATTTCAACACGAGCAATGTAACTACGTTGATAAAGGGCATTGGTGAGATAGGAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G35155.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G35155.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G34800.1 (Glycine max), 3'ss of exon 4
gtactccagttataatttcatagcaaatctctgcatctttctgttcaggaactggcatatttggacactcttgtttcatactgagtactgactatacagggcatctttcatatctatcccaatgcagAAACGTTTGTGAGAGCGGATGGTGCCTTTATTCCTTTTGCAGAAGATTTCAACACGAGCAATGTAACTACGTTGATAAAGGGCATTGGTGAGATAGGAGA
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----------------ctcatttcaattttgt---tggttatgattttggcttagaattttctgtgggtcctgaccc---ttgactgctgcacat-----gcacattacaattttgttatcttgcagAAACATTTGTGCGAGCTGATGGGGCATTCATCCCATTTGCAGAAGATTTCAATATGAACAATGTAATCACAACTGTAAAAGGTGTAGGGGAGATCAGTGA
upper sequence: AT2G35155.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA20G02500.1 (Glycine max), 3'ss of exon 3
gtactccagttataatttcatagcaaatctctgcatctttctgttcaggaactggcatatttggacactcttgtttcatactgagtactgactatacagggcatctttcatatctatcccaatgcagAAACGTTTGTGAGAGCGGATGGTGCCTTTATTCCTTTTGCAGAAGATTTCAACACGAGCAATGTAACTACGTTGATAAAGGGCATTGGTGAGATAGGAGA
|||| || | || | | ||| | |||| || || | |||| | |||| |||| | ||| || || | | | ||||||||| |||||| |||| ||||| || || || || ||||||||||||||||| | || |||||||| || |||| || | || ||||| || ||
-------------gttttctta------tttcaaatttgttggttatgattttggc----ttagaattttctgttgggtcctgacccatgac-gcat---gcacattacaattttgttatcttgcagAAACATTTGTGCGAGCTGATGGGGCATTCATCCCATTTGCAGAAGATTTCAATATGAACAATGTAATCACAACTGTAAAAGGTGTAGGGGAGATCGGTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttcatactgagtactgactatacagggcatctttcatatctatcccaatgcagAAACGTTTGTGAGAGCGGATGGTGCCTTTATTCCTTTTGCAGAAGATTTCAACACGAGCAATGTAACTACGTTGATAAAGGGCATTGGTGAGATAGGAGA
tactgac putative branch site (score: 1)
tctatccc putative PPT
tttcatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactccagttataatttcatagcaaatctctgcatctttctgttcaggaactggcatatttggacactcttgtttcatactgagtactgactatacagggcatctttcatatctatcccaatgcagAAACGTTTGTGAGAGCGGATGGTGCCTTTATTCCTTTTGCAGAAGATTTCAACACGAGCAATGTAACTACGTTGATAAAGGGCATTGGTGAGATAGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA