Sequence
atgc intronic sequence ATGC exonic sequencegtgagtctatttcttcacaccccatcttttacaatcttttaagcctcttgatgctgaaaagtgtttatttgtcggctcttctttcagATGATTGATCCCATGGGGATCTCAAATTGGTCAGTGACGTTTGTTGATTGGTCTGAACGAAGGTGGCATCCAAAGACATACGGAGGAAACGAGATTTCAT
Basic information
species | Arabidopsis thaliana |
transcript | AT4G25870.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G25870.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os02g07880.1 (Oryza sativa), 3'ss of exon 8
gtgagtctatt-tcttcacaccccatcttttacaatcttttaagcctcttgatgctgaaaagtgtttatttgtcggctcttctttcagATGATTGATCCCATGGGGATCTCAAATTGGTCAGTGACGTTTGTTGATTGGTCTGAACGAAGGTGGCATCCAAAGACATACGGAGGAAACGAGATTTCAT
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gtcagtaaataatattttgaattgatatttagctttcttcttggtcccttgcttttctttcatatgctttcact---ttcatcttcagATGGTAGATCCTGGTGGAATCTCTAATTGGTCAGTGACACATGTTGATTGGTCTGAAGGAAAATGGCATCCAAGGTCGTATAGAGCTATTGATGTTACCT
upper sequence: AT4G25870.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os06g48700.1 (Oryza sativa), 3'ss of exon 8
gtgagtctatttcttcacaccccatcttttacaatcttttaagcctcttgatgctgaaaagtgtttatttgtcg--gctcttctttcagATGATTGATCCCATGGGGATCTCAAATTGGTCAGTGACGTTTGTTGATTGGTCTGAACGAAGGTGGCATCCAAAGACATACGGAGGAAACGAGATTTCAT
|| || | ||| | | | |||| | || |||| | | | || |||| || | || | | | | |||||| ||||||| | || || |||||||||||||||| |||||||||||||||| ||| |||||||| || | ||| | | || | |
gtaag---aactctcaaaaac---tcttaaatgatgtttttcagttgtgtttacttcccagtgatttcaggccgttattgtacctgcagATGGTTGATCCAACTGGAATTGCAAATTGGTCAGTGACACATGTTGATTGGTCTGAAGGAAAATGGCATCCTAAAGCTTACAGGGCTGTTGACACAAGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatcttttaagcctcttgatgctgaaaagtgtttatttgtcggctcttctttcagATGATTGATCCCATGGGGATCTCAAATTGGTCAGTGACGTTTGTTGATTGGTCTGAACGAAGGTGGCATCCAAAGACATACGGAGGAAACGAGATTTCAT
tcttgat putative branch site (score: 4)
tcggctcttctttc putative PPT
aaaagtgtttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtctatttcttcacaccccatcttttacaatcttttaagcctcttgatgctgaaaagtgtttatttgtcggctcttctttcagATGATTGATCCCATGGGGATCTCAAATTGGTCAGTGACGTTTGTTGATTGGTCTGAACGAAGGTGGCATCCAAAGACATACGGAGGAAACGAGATTTCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA