Sequence
atgc intronic sequence ATGC exonic sequencegttgatttatatcctcacgtgttactttgtttcctttcaatttgagtcacgactctggagaagtactaattgtaacttatttaacatatttcgttgatgtttacgcagAGACTCATTTTTGAGAGAGCACCTCCTAATATTCGCAAAATTGTTCTTGCTACAAACATGGCAGAAGCTAGTATTACAATAAACGATGTAGTGTTTGTGG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G04895.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G04895.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os03g53760.1 (Oryza sativa), 3'ss of exon 10
gttgatttatatcctcacgtgttactttgtttcctttcaatttgagtcacgactctggagaagtactaattgtaacttattta-acatat---ttcgttgatgtttacgcagAGACTCATTTTTGAGAGAGCACCTCCTAATATTCGCAAAATTGTTCTTGCTACAAACATGGCAGAAGCTAGTATTACAATAAACGATGTAGTGTTTGTGG
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------------tctggactgttagtctattgatacttatttctgttagcatcttttgtgcatcgtataattcatgctattgacatctatgaatgtattatgatattcgcagAGGTTAATCTTTGAGAAGCCACCTCCTAATGTTCGGAAGATAGTGCTTGCCACTAACATGGCAGAAGCAAGTATTACAATAAATGATATTGTTTTTGTCG
upper sequence: AT5G04895.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM5G802858_T01 (Zea mays), 3'ss of exon 3
---------------------------------------------------------------------------------gttgat-ttatatcctcacgtgttactttgtttcctttcaatttgagtcacgactctggagaagtactaattgtaacttatttaacatatttcgttgatgtttacgcagAGACTCATTTTTGAGAGAGCACCTCCTAATATTCGCAAAATTGTTCTTGCTACAAACATGGCAGAAGCTAGTATTACAATAAACGATGTAGTGTTTGTGG
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gtaattgctctaatctggcatatcatagtgatgctgatgtaactatatcttggaccacatgtactattgtactgtgcctaaattgataccatatacaacaggtttatcttgtttattagctgtttgatgtattttatcccaaacatcccttctgtgtttcacatc-tacatttttatcttgttcac--agAGGCTAATTTTTGAGAAGCCACCTCCTAATGTTCGGAAGGTAGTCCTTGCCACAAATATGGCAGAAGCAAGTATTACAATAAATGATATCGTTTTTGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctggagaagtactaattgtaacttatttaacatatttcgttgatgtttacgcagAGACTCATTTTTGAGAGAGCACCTCCTAATATTCGCAAAATTGTTCTTGCTACAAACATGGCAGAAGCTAGTATTACAATAAACGATGTAGTGTTTGTGG
tactaattgtaactta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgatttatatcctcacgtgttactttgtttcctttcaatttgagtcacgactctggagaagtactaattgtaacttatttaacatatttcgttgatgtttacgcagAGACTCATTTTTGAGAGAGCACCTCCTAATATTCGCAAAATTGTTCTTGCTACAAACATGGCAGAAGCTAGTATTACAATAAACGATGTAGTGTTTGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC