Sequence
atgc intronic sequence ATGC exonic sequenceTCCTTTAAGAAGAATGGTTTCTGTGTTGGCAAATTCTTATGACCGTTATGCTAAGCTTTTGAATGGAACTCATAAGTCTCATGTTCATTCTCCTGCAGAGgttcttttttttttgcatacaaatgttttggattcttgagtttgttggtttcttgattcttttgattccactgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G50620.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G50620.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA17G20280.1 (Glycine max), 5'ss of exon 4
TCCTTTAAGAAGAATGGTTTCTGTGTTGGCAAATTCTTATGACCGTTATGCTAAGCTTTTGAATGGAACTCATAAGTCTCATGTTCATTCTCCTGCAGAGgttcttttttttttgcatacaaatgttttggattcttg-agtttgttggtttcttgattcttttgattccactgcag
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CTTATTACGGAGAATGGTATCAATGCTTGCCAACTCTTATGATCGTTATGCTAAGCTATTGAGTGGAACTCATAAGTCTCATGTTCATTCTACAGAAGAGgt-ctctctctcttgctttcccttaatttcttttaacataaaatgaaactcatttggctttttttag----------
upper sequence: AT3G50620.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G16400.1 (Glycine max), 5'ss of exon 3
TCCTTTAAGAAGAATGGTTTCTGTGTTGGCAAATTCTTATGACCGTTATGCTAAGCTTTTGAATGGAACTCATAAGTCTCATGTTCATTCTCCTGCAGAGgttcttttttttttgcatacaaatgttttggattcttgagtttgttggtttcttgattcttttgattccactgcag--------------
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CTTATTACGGAGAATGGTATCAATGCTTGCCAACTCCTATGATCGTTATGCTAAACTATTTAGTGGAACTCATAAATCTCATGTTCATTCTAAAGAAGAGgtctctctctctctctctctctctctctct--ctcttgtttttccttaatttcttttaacataaaatgaaagtcatttggcttgttttag
upper sequence: AT3G50620.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA11G06080.1 (Glycine max), 5'ss of exon 4
TCCTTTAAGAAGAATGGTTTCTGTGTTGGCAAATTCTTATGACCGTTATGCTAAGCTTTTGAATGGAACTCATAAGTCTCATGTTCATTCTCCTGCAGAGg----ttcttttttttttgcatacaaatgttttggattcttgagtttgttggtttcttgattcttttgattccactgcag
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CTTGCTACGCAGGATGGTATCAATGCTAGCCAATTCATATGACCGTTATGCCAAGCTATTGAATGGAACACACAAGGCTCATGTACACTCTGCAGAAGAGgtatctccatccatctttcctttgatttctgttatggtcatggaatgaagctcatatttgcctatttggtttcttt-tag
upper sequence: AT3G50620.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA01G39190.1 (Glycine max), 5'ss of exon 4
TCCTTTAAGAAGAATGGTTTCTGTGTTGGCAAATTCTTATGACCGTTATGCTAAGCTTTTGAATGGAACTCATAAGTCTCATGTTCATTCTCCTGCAGAGgttctttttt---ttttgcatacaaatgtt-ttggattcttgagtttgttggtttcttgattcttttgattccactgcag
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CTTGCTACGCAGGATGGTATCAATGCTAGCCAATTCATATGATCGTTATGCCAAGCTATTGAATGGAACGCACAAGGCTCATGTACACTCTGCAGAAGAGgtctcttcatccatctttcctttgattcctgttatagtcatggaatgaagctcacatttgcctatttggtttcttt-tagMapped 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|124770912|gb|EH861042.1|EH861042EST: CTAAGCTTTTGAATGAAACTCATAAGTCTCATGTTCATTCTCCTGCAGAG GCAGATGCACTTTCTAGATATAAG
genomic: CTAAGCTTTTGAATGGAACTCATAAGTCTCATGTTCATTCTCCTGCAGAGgttctttttt ... tccactgcagGCAGATGCACTTTCTAGATATAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCTTTAAGAAGAATGGTTTCTGTGTTGGCAAATTCTTATGACCGTTATGCTAAGCTTTTGAATGGAACTCATAAGTCTCATGTTCATTCTCCTGCAGAGgttcttttttttttgcatacaaatgttttggattcttgagtttgttggtttcttgattcttttgattccactgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG