Sequence
atgc intronic sequence ATGC exonic sequenceGAGGCCTGGTCAGAGCAGGATCACAACTCCTAGAAAAGAGACTGATACTTGCCGGATATCGTCTGGAGTCTCTGAAGgtctagttatacattctatttcatagtttgagtttgattttgtttctcagccgttgttctaattgttgatatccataaatttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G48850.3 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G48850.3 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G35560.1 (Glycine max), 5'ss of exon 3
GAGGCCTGGTCAGAGCAGGATCACAACTCCTAGAAAAGAGACTGATACTTGCCGGATATCGTCTGGAGTCTCTGAAGgtctagttatacattctatttcatagtttgagtttgattttg--tttctcagccgttgttctaattgttgatatccataaatttgcag
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GAGGCCAGGTCAGAGCCGAATTACAACTCCTAGAAAGGAGACTGATACATGTAAAATATTTTCAGGAGTTTCTGAAGgtcaa--tatttcttccgactattattagcggttaaattatacctttcttgggaaaggtttgaagtata---atctgttaatt-gcag
upper sequence: AT1G48850.3 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA20G31980.1 (Glycine max), 5'ss of exon 3
GAGGCCTGGTCAGAGCAGGATCACAACTCCTAGAAAAGAGACTGATACTTGCCGGATATCGTCTGGAGTCTCTGAAGgtc--tagttatacattctatt-tcatagtttgagtttgattttgtttctcagccgttgttctaattgttgatatccataaatttgcag
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GAGGCCAGGTCAGAGCCGAATTACAACTCCTAGAAAGGAGACTGATACATGTAAAATATTTTCAGGAGTTTCCGAAGgtcaatatttcttccgactattattagctgttaaattatatctttcttgagaaaaaaggtttgaagtata---atctgttaatt-gcag
upper sequence: AT1G48850.3 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv13s0019g04190.t01 (Vitis vinifera), 5'ss of exon 3
GAGGCCTGGTCAGAGCAGGATCACAACTCCTAGAAAAGAGACTGATACTTGCCGGATATCGTCTGGAGTCTCTGAAGgtctagttatacattctat--ttcatagtttgagttt--gattttgtttctcagc------cgttgttctaattgttgatatccataaatttgcag--------------
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GAGGCCAGGTCAGAGCCGAATTACTACACCAAGGAAAGAGACTGATACTTGCCGAATATATTCTGGAGTTGCTGAAGgttagatgtctgcttttatcatttagaatttgcttttatggccttctcacctaaaaagttatgtttttgtcttacttggaatgaatggatgcatgatatatcatgtgcagMapped 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|124947013|gb|EL022884.1|EL022884EST: CTGGAGTCTCTGAAG GAATGACGACAGGAACACCTATCCATGTGTTTGTACCAAACACAGAT
genomic: CTGGAGTCTCTGAAGgtctagttat ... aaatttgcagGAATGACGACAGGAACACCTATCCATGTGTTTGTACCAAACACAGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGGCCTGGTCAGAGCAGGATCACAACTCCTAGAAAAGAGACTGATACTTGCCGGATATCGTCTGGAGTCTCTGAAGgtctagttatacattctatttcatagtttgagtttgattttgtttctcagccgttgttctaattgttgatatccataaatttgcag
- - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG