Sequence
atgc intronic sequence ATGC exonic sequenceGAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAGgtcagttaaacaatgattgttttattcactccaaataactgaagcctcatatgttccaagtcttgaccacgctaacatttgaagaatgaatttgacgtat...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G57600.1 |
intron # | 15 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G57600.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA20G25100.1 (Glycine max), 5'ss of exon 16
GAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAGgtcagttaaacaatgattgttttattcactccaaataactgaagcctcatatgttccaagtcttgaccacgctaacatttgaagaatgaatttgacgtat---
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GAAGCTTCTTTCATGGGCATGGTTGACGTGTTTATTCTTCATCCCTGAGTTGGTTTTAAAATCAGCAGCAAAAGCATTTCAGgtaa--tgcatatccacaattttcctt-ttctaaagttttcattgatcctaagttgttatgcttg--ctgtctaacat---ggaggtaaatttgat-tatcag
upper sequence: AT1G57600.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA10G41940.2 (Glycine max), 5'ss of exon 15
GAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAGgtcagttaaacaatgattgttttattcactccaaataactgaagcctcatatgttccaagtcttgaccacgctaacatttgaagaatgaatttgacgtat---
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GAAACTTCTTTCATGGGCATGGTTGACGTGTTTATTCTTCATCCCTGAGTTGGTTTTAAAATCAGCAGCAAAAGCATTTCAGgtaa--tgcatatccacaatttttctc-ttctaaattttcattgatccaaa-gttgttatgcttg--ctgtctaacat---ggaggtaaatttgat-tattag
upper sequence: AT1G57600.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: Vv00s0449g00010.t01 (Vitis vinifera), 5'ss of exon 9
GAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAGgtcagttaaacaatgattgtt-ttattcactccaaataac-tgaagcctcatatgttc--caagtcttgaccacgctaacatttgaagaatgaatttgacgtat
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GAAGCTTCTTTCATGGGCATGGTTAACGTGTTTATTCTTTGTTCCAGAGATGATACTGAAATCATTGGCAAATGCATTTCAGgtgatgtgtattttccgagttgctatttactctaatttacgtcattttccctctgattatcaacattttatcttgcttact----aggttctgattgaaccaat
upper sequence: AT1G57600.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: Vv00s0507g00020.t01 (Vitis vinifera), 5'ss of exon 9
GAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAGgtcagttaaacaatgattgtt-ttattcactccaaataactgaagcctcatat--gttccaagt-cttgaccacgctaacatttgaagaatgaatttgacgtat
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GAAGCTTCTTTCATGGGCATGGTTAACGTGTTTATTCTTTGTTCCAGAGATGATACTGAAATCATTGGCAAATGCATTTCAGgtgatgtgtattttccgagttgctatttactctaatttacttcattttccctctgattataaacattttatcttgcttac----gaggttctgattgaaccaat
upper sequence: AT1G57600.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: Vv00s0581g00010.t01 (Vitis vinifera), 5'ss of exon 6
GAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAGgtcagttaaacaatgattgtt-ttattcactccaaataac-tgaagcctcatatgttc--caagtcttgaccacgctaacatttgaagaatgaatttgacgtat
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GAAGCTTCTTTCATGGGCATGGTTAACGTGTTTATTCTTTGTTCCAGAGATGATACTGAAATCATTGGCAAATACATTTCAGgtgatgtgtattttccgagttgctatttactctaatttacgtcattttccctctgattatcaacattttatcttgcttact----aggttctgattgaaccaatMapped 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|86084239|gb|DR379998.1|DR379998EST: TATTCTTCATGCCAGAAATGTTMCTGAAATCAGCATCCAGTGCATATAAG GTTGAGAGTGCTTTTGGAGAATTCCTCCTTCGTGAACTCAAGGCGTTGTCT
genomic: TATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAGgtcagttaaa ... aatgttgcagGTTGAGAGTGCTTTTGGAGAATTCCTCCTTCGTGAACTCAAGGCGTTGTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAGCTTCTTTCATGGGCATGGTTAACATGTTTATTCTTCATGCCAGAAATGTTACTGAAATCAGCATCCAGTGCATATAAGgtcagttaaacaatgattgttttattcactccaaataactgaagcctcatatgttccaagtcttgaccacgctaacatttgaagaatgaatttgacgtat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaacaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaagaat