Sequence
atgc intronic sequence ATGC exonic sequence...agagattggtgaaaatcctatatcagaaatattttttataaggcatgaacctgttattacagagtatgagtatctcaaatttttctgttctattcttcagAGTGCAGTCCAACAGAAGGGCAGTGAGGTCAATCTGACCCTTGGGGGAATTGATCTCAACAATTCAGGCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G24580.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G24580.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA04G09780.1 (Glycine max), 3'ss of exon 2
----agagattggtgaaaatcctatat-cagaaatattttttataaggcatgaacctgttattacagagtatgagtatctcaaatttt-tctgttctattcttcagAGTGCAGTCCAACAGAAGGGCAGTGAGGTCAATCTGACCCTTGGGGGAATTGATCTCAACAATTCAGGCAG
| | | || || || | || | | ||| | | || ||| |||||| | | | ||||| | || | | || | | | |||| ||| ||| |||||||| | ||| || ||| |||||||||| || ||||| |||||||||||||||||
aaacacacacacatgcaagtctaacatgtttacttggtttgtgtttgg---aaacttgttatcata---ttcatatatctttatcattgtgttttttgctttacagAATGCTGTCTCTCAGAAGGGAAATGAAGTGAATTTGACCCTTGGTGGCATTGACCTCAACAATTCAGGCAG
upper sequence: AT4G24580.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G09860.1 (Glycine max), 3'ss of exon 5
------agagattggtgaaaatcctatat-cagaaatattttttataaggcatgaacctgttattacagagtatgagtatctcaaatttt-tctgttctattcttcagAGTGCAGTCCAACAGAAGGGCAGTGAGGTCAATCTGACCCTTGGGGGAATTGATCTCAACAATTCAGGCAG
| | | || || || | || | | ||| | | || ||| |||||| | ||| ||||| | || | | || | | | |||| ||| |||| |||||||| | ||| || ||| |||||||||| || ||||| |||||||||||||||||
caacacacacacacatgcaagtctaacatgtttacttggtttgtgtttgg---aaacttgttatca-----tattcatatctttatcattgtgttttttgctttacagAATGCTGTCCCTCAGAAGGGAAATGAAGTGAATTTGACCCTTGGTGGCATTGACCTCAACAATTCAGGCAG
upper sequence: AT4G24580.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv18s0001g07310.t01 (Vitis vinifera), 3'ss of exon 3
-agagattggtgaaaatcctatatcagaaatattttttataaggcatgaacctgttattacagagtatgagtatctcaaatttttctgttctattcttcagAGTGCAGTCCAACAGAAGGGCAGTGAGGTCAATCTGACCCTTGGGGGAATTGATCTCAACAATTCAGGCAG
||| ||| | || | | || ||| |||| | || || || ||| | | || | || || | || || | | |||||||| | | || ||||| |||||||| ||| |||||||||| || ||||| |||||||||||||||||
ttttatttgatgatactctttttcaagctctatctttttccatgcttgt-tgcatttttaaggttttagaaggttacatatgctactatttctctttccagAGTGCTATTCCTCAAAAGGGTAGTGAGGTGAATTTGACCCTTGGTGGTATTGACCTCAACAATTCAGGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaacctgttattacagagtatgagtatctcaaatttttctgttctattcttcagAGTGCAGTCCAACAGAAGGGCAGTGAGGTCAATCTGACCCTTGGGGGAATTGATCTCAACAATTCAGGCAG
tttttctgttctattc CT-rich tract
tatctcaaattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agagattggtgaaaatcctatatcagaaatattttttataaggcatgaacctgttattacagagtatgagtatctcaaatttttctgttctattcttcagAGTGCAGTCCAACAGAAGGGCAGTGAGGTCAATCTGACCCTTGGGGGAATTGATCTCAACAATTCAGGCAG
- - - - - -aaaatcc
- - - - - - - - - - - -cagaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctcaaa