Sequence
atgc intronic sequence ATGC exonic sequencegtaagtggccagcttaagtttttttctctttgcataccattccaaatggcagtcttgtgtagtaaagatctgatatactcaatttaactggtcaatcagACTCTTCGGGCTCGTGTTGCTGCTAAAGCAGAACAAAAGAAATTGGAATTGCTTTTCCTTCAATGGAGTGAGCACCAAAAGAAACTTAGCAATTTTATAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G15200.3 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G15200.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G05410.4 (Glycine max), 3'ss of exon 7
gtaagtggccagct-taagtttttttctctttgcataccattccaaatggcagtcttgtgtagtaaagatc--tga----tatactcaatttaactggt----caatcagACTCTTCGGGCTCGTGTTGCTGCTAAAGCAGAACAAAAGAAATTGGAATTGCTTTTCCTTCAATGGAGTGAGCACCAAAAGAAACTTAGCAATTTTATAA
|| || || ||| | || || || | |||| | | | || || | | | || | | |||| || ||| | | | ||||||||||| |||||||||| |||||||| ||||| ||||||||||||| |||| || ||||| |||| |||||| || || | ||| |||||||||||||
gtttgttttcaatgataactattctttgctattcataatagacaatgacacaacgttccattttgattctcattaacaattatattctttttcccccctattcctatcagACTCTTAGGGCTCGTGTGGCTGCTAAGACAGAAGAAAAGAAATTGGAGCTGCTGTTTCTTCAGTGGACTGAGCATCATAAAAGACTAAGCAATTTTATAA
upper sequence: AT1G15200.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G19640.1 (Glycine max), 3'ss of exon 7
gtaagtggccagct-taagtttttttctctttgcataccattccaaatggcagtcttgtgtagtaaagatctgatatactcaatttaactggtca-atcagACTCTTCGGGCTCGTGTTGCTGCTAAAGCAGAACAAAAGAAATTGGAATTGCTTTTCCTTCAATGGAGTGAGCACCAAAAGAAACTTAGCAATTTTATAA
|| || || ||| | || || || | |||| | || || ||| | | | | | |||| | |||| || || |||||||||| |||||||||| |||||||| ||||| ||||||||||||| |||| || ||||| ||||||||||| | || | ||| |||||||||||||
gtttgttttcaataataactattctttgctattcataatagatcatgctacattctgattc--tcattaacaattatattttttttacctattcccatcagACTCTCAGGGCTCGTGTGGCTGCTAAGACAGAAGAAAAGAAATTGGAGCTGCTGTTTCTTCAGTGGAGTGAGCATCGTAAAAGACTAAGCAATTTTATAA
upper sequence: AT1G15200.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv12s0055g00360.t01 (Vitis vinifera), 3'ss of exon 7
--------gtaagtggccagcttaagtttttttctctttgcataccattccaaatggcagtcttgtgtagtaaagatctgata------tactcaatttaactggt---------caatcagACTCTTCGGGCTCGTGTTGCTGCTAAAGCAGAACAAAAGAAATTGGAATTGCTTTTCCTTCAATGGAGTGAGCACCAAAAGAAACTTAGCAATTTTATAA
|| | | || | | | | | | ||| | | |||||| ||| | || ||| ||| | | | |||||||||| | |||||||||||||| || |||||| ||||||| ||||||||||| || |||| ||||||||||||||||| | ||| |||||| | |||
gtttgtgtttacttaattatattgtgcaactctatggtgaagctttaaattgaatcccttttttgtgtgaaaaatagacaatggcttcgtaccttgtttcatcactgccttttttctatcagACTCTCAGAGCTCGTGTTGCTGCCAAGGCAGAAGAAAAGAAGTTGGAATTGCTGTTTCTTCGGTGGAGTGAGCACCAAAAAAGGCTTTGCAATTATCTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatggcagtcttgtgtagtaaagatctgatatactcaatttaactggtcaatcagACTCTTCGGGCTCGTGTTGCTGCTAAAGCAGAACAAAAGAAATTGGAATTGCTTTTCCTTCAATGGAGTGAGCACCAAAAGAAACTTAGCAATTTTATAA
atttaac putative branch site (score: 3)
atatactcaatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtggccagcttaagtttttttctctttgcataccattccaaatggcagtcttgtgtagtaaagatctgatatactcaatttaactggtcaatcagACTCTTCGGGCTCGTGTTGCTGCTAAAGCAGAACAAAAGAAATTGGAATTGCTTTTCCTTCAATGGAGTGAGCACCAAAAGAAACTTAGCAATTTTATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA