Sequence
atgc intronic sequence ATGC exonic sequenceTGCAAGACGCAAGGAACGAGAATATTTTGATACCAGTCCTGACTATGGTCACTTAGCCAGCAAAATGGGTTCAGAATATCTGGCAAAGCTGCTCTCTAAGgtattcaatcaaaggctgaaatacttgagactttatcggattgtttattcattgttattcatttgatttatggtctttgtttttttatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G60190.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G60190.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA03G24610.1 (Glycine max), 5'ss of exon 9
TGCAAGACGCAAGGAACGAGAATATTTTGATACCAGTCCTGACTATGGTCACTTAGCCAGCAAAATGGGTTCAGAATATCTGGCAAAGCTGCTCTCTAAGgtattcaatcaaaggctgaaatacttgagactttatcggattgtttattcattgttat-tcatttgatttatggtctttgtttttttatgcag
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TGCTAGACGTAAGGAGAGTGAGTATTTTGAAACTAGTCCTGACTATGGGCACTTAGCCAATAAAATGGGTTCTGTATACCTTGCAAAACTTCTCTCACAGgtttgtttttcagaa---agttgttttttgccct------tcttttatgaaataacgtgttgttttaatcatgctaattattttgtag-----
upper sequence: AT3G60190.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA07G12850.1 (Glycine max), 5'ss of exon 9
TGCAAGACGCAAGGAACGAGAATATTTTGATACCAGTCCTGACTATGGTCACTTAGCCAGCAAAATGGGTTCAGAATATCTGGCAAAGCTGCTCTCTAAGgtattcaatcaaaggctgaaatacttgagactttatcggattgtttattcattgttattcatttgatttatggtctttgtttttttatgcag
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TGCTAGACGTAAGGAGAGTGAGTATTTTGAAACTAGTCCTGACTATGGGCACTTAGCCAATAAAATGGGTTCCGTATACCTTGCAAAACTTCTCTCACAGgtttgtttt-------tcagaaagctgttttttgcccttattatgaaataact--tgttattttgatc-atgttaactattttgtag-----
upper sequence: AT3G60190.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv15s0021g00480.t01 (Vitis vinifera), 5'ss of exon 9
TGCAAGACGCAAGGAACGAGAATATTTTGATACCAGTCCTGACTATGGTCACTTAGCCAGCAAAATGGGTTCAGAATATCTGGCAAAGCTGCTCTCTAAGgtattcaatcaaaggctgaaatacttgagactttatcggattgtttatt----cattgttattcatttgatttatggtctttgtttttttatgcag
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TGCAAGGCGCAAGGAGCGTGAGTATTTTGCAACTAGTCCAGATTATGGACACTTGGCCAGTAAAATGGGTTCCGAATATCTTGCAAAACTTCTTTCAAAGgtaaact-ttgtagtatgtccgtttgaggtcttcttcgttatgtatacaagcacattgggtatcatttgaatgagtgaatttggtttcag------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|125058951|gb|EL127628.1|EL127628EST: ACTTAGCCAGCAAAATGGGTTCAGAATATCTGGCAAAGCTGCTCTCTAAG CACTTGGAGTCTGTTATCAGGACCCGTA
genomic: ACTTAGCCAGCAAAATGGGTTCAGAATATCTGGCAAAGCTGCTCTCTAAGgtattcaatc ... ttttatgcagCACTTGGAGTCTGTTATCAGGACCCGTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCAAGACGCAAGGAACGAGAATATTTTGATACCAGTCCTGACTATGGTCACTTAGCCAGCAAAATGGGTTCAGAATATCTGGCAAAGCTGCTCTCTAAGgtattcaatcaaaggctgaaatacttgagactttatcggattgtttattcattgttattcatttgatttatggtctttgtttttttatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT