Sequence
atgc intronic sequence ATGC exonic sequenceGCGAAGAGCTTTCAAAGAAACAGGCTGCTCAAGAAGCTCAGATCAGGAAGCTAAGGGCTCAGgtatatattcaacgctatgtgtttcatttttatcaataccaacagtctcatggcaattcttatttgtacgagggttag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G79830.4 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G79830.3 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA13G43330.1 (Glycine max), 5'ss of exon 9
GCGAAGAGCTTTCAAAGAAACAGGCTGCTCAAGAAGCTCAGATCAGGAAGCTAAGGGCTCAGgtatatattcaacgctatgtgttt------------catttttatcaataccaaca-----------gtctcatggcaattcttatttgtacgagggttag
| ||||||||||| || |||||||||||||||||| | || ||||| |||||||||||||||| | | | ||| ||| || || |||| || ||| |||| || | | || ||| || || | |||
GTGAAGAGCTTTCCAAAAAACAGGCTGCTCAAGAATCCACAATTAGGAAACTAAGGGCTCAGgtatgcagactatttgttgtattttcctgctatcttcaaccttttcaacccctacatattgtaataaatctcttgattactttttttt-tatgaaagctag
upper sequence: AT1G79830.3 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA15G01980.1 (Glycine max), 5'ss of exon 7
GCGAAGAGCTTTCAAAGAAACAGGCTGCTCAAGAAGCTCAGATCAGGAAGCTAAGGGCTCAGgtatatattcaacgctatgtgttt------cattttta------tcaataccaacagtctcatggcaattctta---------tttgtacgagggttag
| ||||||||||| || |||||||||||||||||| | || ||||| |||||||||||||||| | | | ||| ||| ||| || | || | ||| ||| | | | || ||| | ||| || || | |||
GTGAAGAGCTTTCCAAAAAACAGGCTGCTCAAGAATCCACAATTAGGAAACTAAGGGCTCAGgtatgcagactatttgttgtattttcctgccatcttcaaccttttctacacctaca-tattgtaataaatctcaattactttttttttatgaaagctag
upper sequence: AT1G79830.3 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv16s0098g00540.t01 (Vitis vinifera), 5'ss of exon 6
GCGAAGAGCTTTCAAAGAAACAGGCTGCTCAAGAAGCTCAGATCAGGAAGCTAAGGGCTCAGgtatatattcaacgctatgtgtttcatttttatcaataccaacagtctcatggcaattcttatttgt-----acgagggttag------------------------
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GTGAAGAGCTTTCAAAAAAGCAAGCTGCTCAAGAGTCTCAGATTAGGAAATTAAGGGCACAGgtatacaactaggtctgcttattttcttgtcatttgagagagtcctgttgctgttactcctatttagttttaacaaatctttgctttctctttttcatgaaagctagMapped 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|164158478|gb|ES159755.1|ES159755EST: CAAAGAAACAGGCTGCTCAAGAAGCTCAGATCAGGAAGCTAAGGGCTCAG ATTAGAGAGGCAG
genomic: CAAAGAAACAGGCTGCTCAAGAAGCTCAGATCAGGAAGCTAAGGGCTCAGgtatatattc ... cgagggttagATTAGAGAGGCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCGAAGAGCTTTCAAAGAAACAGGCTGCTCAAGAAGCTCAGATCAGGAAGCTAAGGGCTCAGgtatatattcaacgctatgtgtttcatttttatcaataccaacagtctcatggcaattcttatttgtacgagggttag
- - - - - - AAAGAA
- - - - - - - AAGAAA
- - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - AGATCA