Sequence
atgc intronic sequence ATGC exonic sequenceGCTAAGGGAATGAATTATCTTCACAATCGCAATCCTCCAATTGTGCATAGAGATCTAAAATCTCCAAACTTATTGGTTGACAAAAAATATACAGTCAAGgtttgaatctaaattagaaattgttgtgtccaatgttttgattttgatattttattcctcttgtgagacaagcttatatataaattatgatttttaattc...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G03730.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G03730.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os02g32610.4 (Oryza sativa), 5'ss of exon 12
GCTAAGGGAATGAATTATCTTCACAATCGCAATCCTCCAATTGTGCATAGAGATCTAAAATCTCCAAACTTATTGGTTGACAAAAAATATACAGTCAAGgtttgaatctaaattagaaattgttgtgtccaatgttttgattttgatattttattcctcttgtgagacaagcttatatataaattatgatttttaattc----
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GCTAAGGGGATGAATTACCTTCACAAGCGCAATCCTCCTATAGTCCACCGGGATCTAAAGTCACCAAATCTGTTGGTTGATAAAAAGTACACTGTGAAGgtatatccttttaccc-attttgccatattttaagacctg--tttgatttcacattactctt-tgtggtactttttgttattttttctactttgtttttggaca
upper sequence: AT5G03730.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA19G37570.2 (Glycine max), 5'ss of exon 12
GCTAAGGGAATGAATTATCTTCACAATCGCAATCCTCCAATTGTGCATAGAGATCTAAAATCTCCAAACTTATTGGTTGACAAAAAATATACAGTCAAGgtttgaatctaaattagaaattgttgtgtccaatgttttgattttgatattttattcctcttgtgagacaagcttatatataaattatgatttttaattc--------
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GCTAAGGGAATGAATTATCTTCATAAACGCAATCCTCCCATTGTTCATAGAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAGgtaagaatgcaattt------tctcgtgtcggaaaaattg--ttcagagtttcatttaatccataagtcacctttggtagtattgttccacttctccggcactcacaa
upper sequence: AT5G03730.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA03G34890.1 (Glycine max), 5'ss of exon 12
GCTAAGGGAATGAATTATCTTCACAATCGCAATCCTCCAATTGTGCATAGAGATCTAAAATCTCCAAACTTATTGGTTGACAAAAAATATACAGTCAAGgtttgaatctaaattagaaattgttgtgt--ccaatgttttgattttgatattttattcctcttgtgagacaagcttatatataaattatgatttttaattc
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GCTAAGGGGATGAATTATCTTCATAAACGCAATCCTCCCATTGTTCATAGAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAGgtaagaatggaattttctcatgtctgaaaaattgttgagtttcatttaatccgtaagtcacctttcgtagtattgttccacttctctggcactcacaaat--
upper sequence: AT5G03730.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA10G07610.1 (Glycine max), 5'ss of exon 13
GCTAAGGGAATGAATTATCTTCACAATCGCAATCCTCCAATTGTGCATAGAGATCTAAAATCTCCAAACTTATTGGTTGACAAAAAATATACAGTCAAGgtttgaatctaaattagaa-attgttgtgtccaatgttttgattttgatattttattcctcttgtgagacaagcttatatataaattatgatttttaattc
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GCAAAGGGGATGAATTATCTTCATAAACGTAATCCCCCCATTGTTCATAGAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAGgtaggaatggagttttctttagtataaaaattacaaatagtctttaagggtttcatataaattatttgtcacccatggcagtaggattccacttttcttg-
upper sequence: AT5G03730.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA13G21480.1 (Glycine max), 5'ss of exon 11
GCTAAGGGAATGAATTATCTTCACAATCGCAATCCTCCAATTGTGCATAGAGATCTAAAATCTCCAAACTTATTGGTTGACAAAAAATATACAGTCAAGgtttgaatctaaattagaa-attgttgtgtccaatgttttgattttgatattttattcctcttgtgagacaagcttatatataa-attatgatttttaattc
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GCAAAGGGGATGAATTATCTTCATAAACGTAATCCCCCCATTGTTCATAGAGATCTGAAATCTCCAAACCTTCTTGTTGACAAGAAATATACAGTGAAGgtaagaatgaagttttctctagtataaaaattacaaatagtctttaagggtttcatataaattatttgtcacccatggcaataggattccactttcttgc--
upper sequence: AT5G03730.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv08s0007g03910.t01 (Vitis vinifera), 5'ss of exon 11
GCTAAGGGAATGAATTATCTTCACAATCGCAATCCTCCAATTGTGCATAGAGATCTAAAATCTCCAAACTTATTGGTTGACAAAAAATATACAGTCAAGgtttgaatctaa-attagaaattgttgtgtccaatgttttgattttgatattttattcctcttgtgagacaagcttatata---taaattatgatttttaattc
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GCCAAGGGCATGAATTATCTTCATAAACGCAATCCTCCCATTGTTCATCGAGATTTGAAGTCTCCAAACCTTTTGGTTGACAAAAAATACACCGTGAAGgtaagagtggaatatcttgagcttgcaagatagacgtct--acttcgataatcaatgt-tctagccaccttagttttgctgccttgcactttttgttttgatt-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|116423837|gb|EG466429.1|EG466429EST: GAGATCTAAAATTTCCAAACTTATTGGTTGACAAAAAATATACAGTCAAG GTTTGTGATTTTGGTCTCTCGCGATTGAAGGCCAGCACGTTTCTTTCCTCG
genomic: GAGATCTAAAATCTCCAAACTTATTGGTTGACAAAAAATATACAGTCAAGgtttgaatct ... gaaatttcagGTTTGTGATTTTGGTCTCTCGCGATTGAAGGCCAGCACGTTTCTTTCCTCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTAAGGGAATGAATTATCTTCACAATCGCAATCCTCCAATTGTGCATAGAGATCTAAAATCTCCAAACTTATTGGTTGACAAAAAATATACAGTCAAGgtttgaatctaaattagaaattgttgtgtccaatgttttgattttgatattttattcctcttgtgagacaagcttatatataaattatgatttttaattc
- - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctcttgt