Sequence
atgc intronic sequence ATGC exonic sequenceCCTGAGTCAGAAGAAAGAAGAAGAGGAACTCTTGAAACTCCACAAACAAGAAGCTCTTCAAATGCTTAAGAAGAAGGAGAAAACTGATAATCTGATCAAGgtaataactctctctcactcacacttaactcaccaaggtctatttcaactcagagactcacaggatcataattatttgtctcttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G23800.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G23800.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G02550.1 (Glycine max), 5'ss of exon 6
CCTGAGTCAGAAGAAAGAAGAAGAGGAACTCTTGAAACTCCACAAACAAGAAGCTCTTCAAATGCTTAAGAAGAAGGAGAAAACTGATAATCTGATCAAGgtaataact-ctctctcactcacacttaactcaccaaggtctatttcaactcagagactcacaggatcataattatttgtctcttgcag
| | ||| ||||| ||||| | ||||||| || ||||||||||| | ||| ||||||||||||||||||||||||| ||| | |||||||| | || |||| ||| | || | | ||| || | | | | | | | ||||||
TGCCCATTTCATGAAGGAAGAGGAGGAGCAGATGAAACTTCAAAAACAAGAAGCATTGCAACTGCTTAAGAAGAAGGAGAAAACTGAAAATATAATCAAGgttttttcttctctatcaattgttctagtccttttgttttacattccagtactttagttgatgctaatccacccaagcaa-tgttgcag
upper sequence: AT4G23800.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA06G36940.1 (Glycine max), 5'ss of exon 5
CCTGAGTCAGAAGAAAGAAGAAGAGGAACTCTTGAAACTCCACAAACAAGAAGCTCTTCAAATGCTTAAGAAGAAGGAGAAAACTGATAATCTGATCAAGgtaata-actctctctcactcacacttaactcaccaaggtctatttcaactcagagactcacaggatcataattatttgtctcttgcag
| | ||| ||||| ||||| | ||||||| || |||||| |||| | ||| ||||||||||||||||||||||||| ||| | |||||||| | | | | || ||| | || |
TGGCCATTTCATGAAGGAAGAGGAGGACCATATGAAACTTCAAAAACAACAAGCATTGCAACTGCTTAAGAAGAAGGAGAAAACTGAAAATATAATCAAGgttttttattttacatctttcagattttag-----------------------------------------------------------
upper sequence: AT4G23800.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA10G27730.1 (Glycine max), 5'ss of exon 6
CCTGAGTCAGAAGAAAGAAGAAGAGGAACTCTTGAAACTCCACAAACAAGAAGCTCTTCAAATGCTTAAGAAGAAGGAGAAAACTGATAATCTGATCAAGgtaata-actctctctcactcacactt-aactcaccaaggtctatttcaactcagagactcacaggatcataattatttgtctcttgcag
| | ||| ||||| ||||| | ||||||| || |||||| |||| | ||| ||||||||||||||||||||||||| ||| | |||||||| | | | | || | | | || | | | ||| | | || | | || |
TGGCCATTTCATGAAGGAAGAGGAGGATCATATGAAACTTCAAAAACAACAAGCATTGCAACTGCTTAAGAAGAAGGAGAAAACTGAAAATATAATCAAGgttttttattttacatcttttagattttagcatttaacaatctggatgtatgcaaaacaaactaagaaaag-------------------
upper sequence: AT4G23800.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA05G37010.1 (Glycine max), 5'ss of exon 6
CCTGAGTCAGAAGAAAGAAGAAGAGGAACTCTTGAAACTCCACAAACAAGAAGCTCTTCAAATGCTTAAGAAGAAGGAGAAAACTGATAATCTGATCAAGgtaataact-ctctctca-ctcacacttaactcaccaaggtctatttcaactcagagactcacaggatcataattatttgtctcttgcag
| | ||| ||||| ||||| | ||||||| || ||||||||||| | ||| |||| ||||||||||||||||| || ||| | |||||||| | || || | ||| | | | | | | || | || | ||| | | | | ||||||
TGCCCATTTCATGAAGGAAGAGGAGGAGCATATGAAACTTCAAAAACAAGAAGCATTGCAACTGCTGAAGAAGAAGGAGAAAACCGAAAATATAATCAAGgttttttcttctttatcagtttagtccttgcccttttgtttcacatccagtacttcagttcatgctaatccacccaagcaa-tgttgcag
upper sequence: AT4G23800.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA01G07470.1 (Glycine max), 5'ss of exon 5
CCTGA--GTCAGAAGAAAGAAGAAGAGGAACTCTTGAAACTCCACAAACAAGAAGCTCTTCAAATGCTTAAGAAGAAGGAGAAAACTGATAATCTGATCAAGgtaataact-ctctctcactcacacttaactcaccaaggtctatttcaactcagagactcacaggatcataatt-atttgt---ctcttgcag
||| | | ||| ||||| ||||| | ||||| | || ||||||||||| | ||| ||||||||||||||||||||| ||| ||| | |||||| | | || || | ||| | | || | | || || | ||| | | ||| |||| | | ||||||
-CTGGCCATTTCATGAAGGAAGAGGAGGACCATATGAAAGTTCAAAAACAAGAAGCATTGCAACTGCTTAAGAAGAAGGAGAAAATTGAAAATATAATCAAgtttttttcttctgtatcaatttagtcctagtccttttgtttta---catcccagtactttagttgatgctaatccacccaagcaatgttgcagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|164133410|gb|ES143301.1|ES143301EST: AAGCTCTTC-AATGCTTAAGAAGAAGGAGAAAACTGATAATCTGATCAAG AAGGAGAAGGCGACCAAGAAGAAGAAG
genomic: AAGCTCTTCAAATGCTTAAGAAGAAGGAGAAAACTGATAATCTGATCAAGgtaataactc ... tctcttgcagAAGGAGAAGGCGACCAAGAAGAAGAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCTGAGTCAGAAGAAAGAAGAAGAGGAACTCTTGAAACTCCACAAACAAGAAGCTCTTCAAATGCTTAAGAAGAAGGAGAAAACTGATAATCTGATCAAGgtaataactctctctcactcacacttaactcaccaaggtctatttcaactcagagactcacaggatcataattatttgtctcttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA