Sequence
atgc intronic sequence ATGC exonic sequenceAGGAGTGAAGAGGCTGAAAGATGGTGCTTCCCAGGATCAAATATTAAATGAGACACGATTGCAGAACTTGCAACGTGAGCTTGTTAAGGATCTCCAAGAGgtaattaagcctcagctgaaagttagaagtaacccttggcaattttcctcgaagaattttagttaggctttcttaagtactatttaatactaaatgtggaggagaactattgcttgtggactgaaacgtggtcaatgtcttataaaaatcttgatctcaatttggcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G01780.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G01780.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA19G24980.1 (Glycine max), 5'ss of exon 2
AGGAGTGAAGAGGCTGAAAGATGGTGCTTCCCAGGATCAAATATTAAATGAGACACGATTGCAGAACTTGCAACGTGAGCTTGTTAAGGATCTCCAAGAGgtaattaagcct---cagctgaaagttagaagtaacccttggcaattttcctcgaagaattttagttaggctttcttaagtactatttaatactaaatgtggaggagaactattgcttgtggactgaaacgtggtcaatgtcttataaaaatcttgatctcaatttggcag
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TGGTGTAAAAAGAGTCAAAGATGGAGCTTCTCAGGACCAAATTTTGAATGAAACAAGATTGCAAAACTTGCAACGTGAACTTGTGAAGGACTTACGCGAGgtactcaaacttttatatcttaaattcaataaaatttcttattctgacaattgcatgtatgtgaaccatatcttccaaattgtgatttt-tattattattg----------------------------------------------------------------------
upper sequence: AT3G01780.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA16G06580.1 (Glycine max), 5'ss of exon 2
AGGAGTGAAGAGGCTGAAAGATGGTGCTTCCCAGGATCAAATATTAAATGAGACACGATTGCAGAACTTGCAACGTGAGCTTGTTAAGGATCTCCAAGAGgtaattaagcct---cagctgaaagttagaagtaacccttggcaattttcctcgaagaattttagttaggctttcttaagtactatttaatactaaatgtggaggagaactattgcttgtggactgaaacgtggtcaatgtcttataaaaatcttgatctcaatttggcag
|| || || || | |||||||| ||||| ||||| ||||| || ||||| || ||||||| |||||||||||||| ||||| ||||| | || |||||| | || | | | || ||| | | | | ||| | | | || | | | ||| || | |||| || || ||
TGGGGTAAAAAGAGTCAAAGATGGAGCTTCTCAGGACCAAATTTTGAATGAAACTAGATTGCAAAACTTGCAACGTGAACTTGTGAAGGACTTGCATGAGgtactcaaacttttatatcttaaattcaataaaatttcttattctgacaattgcatgtatgtggactgtaccttccaaactgtgatttt-tattattattg----------------------------------------------------------------------
upper sequence: AT3G01780.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv14s0171g00280.t01 (Vitis vinifera), 5'ss of exon 2
AGGAGTGAAGAGGCTGAAAGATGGTGCTTCCCAGGATCAAATATTAAATGAGACACGATTGCAGAACTTGCAACGTGAGCTTGTTAAGGATCTCCAAGAGgtaattaagcctcagctgaaag-ttagaagtaacccttggcaattttcctcgaagaattttagttaggctttcttaagtactatttaatactaaatgtggaggagaactattgcttgtggactgaaacgtggtcaatgtcttataaaaatcttgatctcaatttggcag
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AGGGGTGAAAAGGGTGAAAGATGGTGCTTCTCAGGATCAAATACTGAATGAGACAAGGTTGCAAAATTTGCAACGTGAACTTGTGAAAGATCTTCGTGAGgtttgtaagttctccttgaaagattaaacagtatacttctcaataactc----agcatgttgacaatgcatttatgtg----attaaattgataatctttagtaatcc-------------------------------------------------------------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|124909814|gb|EH983894.1|EH983894EST: AACTTGCAACGTGAGCTTGTTAAGGATCTCCAAGAG GTAAATACCCCAAGAATCCTCGGGCGTCTTATATGGACAATCGCAGAACAT
genomic: AACTTGCAACGTGAGCTTGTTAAGGATCTCCAAGAGgtaattaagc ... aatttggcagGTAAATACCCCAAGAATCCTCGGGCGTCTTATATGGACAATCGCAGAACAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGAGTGAAGAGGCTGAAAGATGGTGCTTCCCAGGATCAAATATTAAATGAGACACGATTGCAGAACTTGCAACGTGAGCTTGTTAAGGATCTCCAAGAGgtaattaagcctcagctgaaagttagaagtaacccttggcaattttcctcgaagaattttagttaggctttcttaagtactatttaatactaaatgtggaggagaactattgcttgtggactgaaacgtggtcaatgtcttataaaaatcttgatctcaatttggcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT