Sequence
atgc intronic sequence ATGC exonic sequenceTTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACTTTGgtatgattcataaatgcctctcaataagttccatgggtctatttcattcttttgttccattgtccttaaaagtagaaatccattcctctgttttactaacccttaagatgaagtccttatagtttcatattaatgatctatgctttaatattttttgatggacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G04200.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G04200.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA15G24080.1 (Glycine max), 5'ss of exon 9
TTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACTTTGgtatgattcataaatgcctctcaataagttccatgggtctatttcattcttttgttccattgtccttaaaagtagaaatccattcctctgttttactaacccttaagatgaagtccttatagtttcatattaatgatctatgctttaatattttttgatggacag
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CTTAGCTGATGAGACAGCTGTCCTACTTCTTTACTCATTGTTGCAAGGGAATTCCACCTTTCTGGAGTATGTCTTGGTCCGGACTGATTTGGATACATTGgtatga---ggaaataagcttaaattcccaccaaggaaaaagtgcaatgaattaatttattat----aaatgtatataggt-taaagatgcatgaataaattttaggg---------------------------------------------------------
upper sequence: AT1G04200.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA10G00550.1 (Glycine max), 5'ss of exon 8
TTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACTTTGgtatga-----ttca--taaatgcctctcaataagttccatgggtctatttcattcttttgttccattgtccttaaaagtagaaatccattcctctgttttactaacccttaagatgaagtccttatagtttcatattaatgatctatgctttaatattttttgatggacag
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CTTAGCTGATGAGACAGCTGTCCTACTTCTTTACTCATTTTTGCAAGGGAATTCCACCTTTCTGGAGTATGTCTTAGTCCGGACTGATTTGGATACATTGgtatgaggaaattaacttaaattcctcccaagga-----aaaaatggaatgaattaatttattataaatgtgtatgggttaaagatgcatgtataaattttaggg-------------------------------------------------------------------
upper sequence: AT1G04200.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA10G38920.2 (Glycine max), 5'ss of exon 8
TTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACTTTGgtatgattca-------taaatgcctctcaataagttccatgggtctatttcattcttttgttccattgtccttaaaagtagaaatccattcctctgttttactaacccttaagatgaagtccttatagtttcatattaatgatctatgctttaatattttttgatggacag
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CTTAGCTGATGAGGCAGCTGTTCTACTGCTTTACTCATTGTTGCAAGGGAATTCTGCCTTTCTGGAGTATGTATTAGTGCGGACAGATCTGGATACATTGgtatgaggcagcaaacttaagtttctcctattaaaaac-gtgggaatagattaattactt-ttatataagtc----aagtagaattttagat-taagttatgttgag-----------------------------------------------------------------
upper sequence: AT1G04200.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA20G28880.1 (Glycine max), 5'ss of exon 7
TTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACTTTGgtatgattcataaatgcctctcaataagttccatgggtctatttcattcttttgttccattgtccttaaaagtagaaatccattcctctgttttactaacccttaagatgaagtccttatagtttcatattaatgatctatgctttaatattttttgatggacag
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CTTAGCTGATGAGGCAGCTGTTCTATTGCTTTACTCATTGTTGCAAGGGAATTCTGCCTTTCTGGAGTATGTATTAGTGCGGACAGATCTGGATGCATTGgtatgaggcagcaaa---cttaagtttctcctattaaaaaagtgggaa---tgaattaattatttttatatgtaaaagtcaagtagaatttcggatgaagttatgt-----------------------------------------------------------
upper sequence: AT1G04200.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv05s0020g04100.t01 (Vitis vinifera), 5'ss of exon 8
TTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACTTTGgtatgattcataaatgcctctcaataagttccatgggtctatttcattcttttgttccattgtccttaaaagtagaaatccattcctctgttttactaacccttaagatgaagtccttatagtttcatattaatgatctatgctttaatattttttgatggacag
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CTTGGCTGATGAGACTGCCATCCTACTGCTTTACTCACTGGTGCATGGAAACTCTGACTTCCTGGAGTATGTTTTGGTGCGAACTGATTTGGACACATTGgtatgaaacatcagctcatatttctgtctttgttgagctaaaaaccagtccccatatattccattctcacatcaccagcccaaccctaagacccaaaaaa-----------------------------------------------------------------Mapped 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|86088183|gb|DR383942.1|DR383942EST: ATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACTTTG TTGATGCCCATCCTGGAGACGCTGTATAACGCTTCAAAGAGAACATCATCT
genomic: ATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACTTTGgtatgattca ... tgatggacagTTGATGCCCATCCTGGAGACGCTGTATAACGCTTCAAAGAGAACATCATCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTAGCTGATGAGGGCGCCGTCTTGCTCCTCTACTCATTGTTGCAAGGGAATTCCGACTTTAAGGAGTATGTGTTGGTGCGAACTGATTTGGATACTTTGgtatgattcataaatgcctctcaataagttccatgggtctatttcattcttttgttccattgtccttaaaagtagaaatccattcctctgttttactaacccttaagatgaagtccttatagtttcatattaatgatctatgctttaatattttttgatggacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG