Sequence
atgc intronic sequence ATGC exonic sequencegtatgtctgattactcttttaggtgtttctctgcatatgcctcaagttaaatgctgagaatttattcatatctatgctcaaacactgcattctcttgtctcagGGGTGGTAAATACCCGGAGGATGATGCAAAGGCGATTGTCGTACAAATTCTAACTGTTGTTTCATTTTGTCATCTCCAAGGAGTTGTGCACCGTGACTTA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G46700.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G46700.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G05750.1 (Glycine max), 3'ss of exon 3
gtatgtctgattactcttttaggtgtttctctgcatatgcctcaagttaaatgctgagaatttattcatatctatgctcaaacactgcattctcttgtctcagGGGTGGTAAATACCCGGAGGATGATGCAAAGGCGATTGTCGTACAAATTCTAACTGTTGTTTCATTTTGTCATCTCCAAGGAGTTGTGCACCGTGACTTA
||| || || || || | | || |||| || | || || ||| || | || | || | | | ||||| || || || | ||||| ||||| |||| || || | || || |||| || ||| ||||||||||||| ||||| |||||||||||||||||
---------gttagctttctatttgctttttaaaaaat--ttcaacttgg----------tataatcttatttaa--ttgaataatgtttatttaaaaattagGGGAGGAAAGTATTCTGAGGAGGATGCCAAGGTTATAGTTTTGCAGATCCTAAGCGTAGTTGCATTTTGTCATCTTCAAGGTGTTGTGCACCGTGACTTG
upper sequence: AT2G46700.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv15s0048g02840.t01 (Vitis vinifera), 3'ss of exon 3
gtatgtctgattactcttttaggtgtttctctgcatatgcctcaagttaaatgctgagaatttattcatatctatgctcaaacactgca------ttctc--ttgtctcagGGGTGGTAAATACCCGGAGGATGATGCAAAGGCGATTGTCGTACAAATTCTAACTGTTGTTTCATTTTGTCATCTCCAAGGAGTTGTGCACCGTGACTTA
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--gtaaaaaatgacccttttttcattcccccagcaccacacacacacccacccccacccacacacacacacacatatttagaagttatgaaatagttctcatttgttgcagAGGAGGAAGATACACTGAAGAAGATGCAAAAGCAATTGTTGTACAAATCTTAAGCGTTGTTGCATTTTGTCATCTTCAAGGCGTTGTGCACCGTGACTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatgctgagaatttattcatatctatgctcaaacactgcattctcttgtctcagGGGTGGTAAATACCCGGAGGATGATGCAAAGGCGATTGTCGTACAAATTCTAACTGTTGTTTCATTTTGTCATCTCCAAGGAGTTGTGCACCGTGACTTA
cattctcttgtctc CT-rich tract
aatttattcatatcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtctgattactcttttaggtgtttctctgcatatgcctcaagttaaatgctgagaatttattcatatctatgctcaaacactgcattctcttgtctcagGGGTGGTAAATACCCGGAGGATGATGCAAAGGCGATTGTCGTACAAATTCTAACTGTTGTTTCATTTTGTCATCTCCAAGGAGTTGTGCACCGTGACTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG