Sequence
atgc intronic sequence ATGC exonic sequenceAATGAGCCAGAAGAAAGAAGAAGAAGAATTCATGAAACTCCATAAACAAGAAGCTCTCCAACTTCTCAAGAAGAAGGAGAAAACCGACAATATCATAAAGgttaatatactaaactcacagtgcattgagctattttgggatataagtcagtaactaacacaacacatgttttctttcttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G11080.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G11080.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA05G37010.1 (Glycine max), 5'ss of exon 6
AATGAGCCAGAAGAAAGAAGAAGAAGAATTCATGAAACTCCATAAACAAGAAGCTCTCCAACTTCTCAAGAAGAAGGAGAAAACCGACAATATCATAAAGgttaatatactaaactcacagtgcattgagctattttg----ggatataagtcagtaactaacac-aacacatgttttctttcttgcag
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TGCCCATTTCATGAAGGAAGAGGAGGAGCATATGAAACTTCAAAAACAAGAAGCATTGCAACTGCTGAAGAAGAAGGAGAAAACCGAAAATATAATCAAGgttttttcttctttatcagtttagtccttgcccttttgtttcacatccagtacttcagttcatgctaatccacccaagcaatgttgcag
upper sequence: AT4G11080.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G02550.1 (Glycine max), 5'ss of exon 6
AATGAGCCAGAAGAAAGAAGAAGAAGAATTCATGAAACTCCATAAACAAGAAGCTCTCCAACTTCTCAAGAAGAAGGAGAAAACCGACAATATCATAAAGgttaatatactaaactcacagtgcattgagctattttgggatataagtcagtaactaacacaacacatgttttctt------tcttgcag
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TGCCCATTTCATGAAGGAAGAGGAGGAGCAGATGAAACTTCAAAAACAAGAAGCATTGCAACTGCTTAAGAAGAAGGAGAAAACTGAAAATATAATCAAGgtt--ttttcttctctatcaattgttctagtccttttgttttacattccagtactttagttgatgctaatccacccaagcaatgttgcagMapped 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|125312525|gb|EL326610.1|EL326610EST: AAGCTCTCCAACTTCTCAAGAAGAAGGAGAAAACCGACAATATCATAAAG AAGACGAAAGAGACGG
genomic: AAGCTCTCCAACTTCTCAAGAAGAAGGAGAAAACCGACAATATCATAAAGgttaatatac ... tttcttgcagAAGACGAAAGAGACGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATGAGCCAGAAGAAAGAAGAAGAAGAATTCATGAAACTCCATAAACAAGAAGCTCTCCAACTTCTCAAGAAGAAGGAGAAAACCGACAATATCATAAAGgttaatatactaaactcacagtgcattgagctattttgggatataagtcagtaactaacacaacacatgttttctttcttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA