Sequence
atgc intronic sequence ATGC exonic sequenceTGAAACTACGGATCAAGTCGTTCAGGGTGCCTGAGCTTTTCATAGAGATTCCAGAAACTGCTACTGTTGGCTCATTGAAGgtaacattacacagctcttcctttcgcctcctattaagaaagtaagttcttatggtcctttggcttctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G59430.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G59430.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os03g16700.4 (Oryza sativa), 5'ss of exon 5
TGAAACTACGGATCAAGTCGTTCAGGGTGCCTGAGCTTTTCATAGAGATTCCAGAAACTGCTACTGTTGGCTCATTGAAGgta----acattacaca----gctcttcctttcgcctc---ctattaagaaagtaagttcttatg-gtcctttggcttctgcag--------------------------------------
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TAAAACTTAGGATCAAGTCTTTCAAGGTGCCTGAACTTCTAATTGAGATCCCAGAAACTGCGACTGTTGGTTCACTGAAGgtacggaaaaagagacattttgctcctgttttctcattaattgatcagcacaaagagatgttgcaagaatttcaccttttgtcgatgatgtttccgtgttttaatatgtatttataatgcag
upper sequence: AT5G59430.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA15G04200.1 (Glycine max), 5'ss of exon 6
TGAAACTACGGATCAAGTCGTTCAGGGTGCCTGAGCTTTTCATAGAGATTCCAGAAACTGCTACTGTTGGCTCATTGAAGgta--acattacacagctcttcctttcgcct-----cctattaagaaagtaagttcttatggtcctttggcttctgcag---------------------------------------------------------------------------------------------------
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TGAAGCTTAGGATCAAATCATTCAGAGTGCCTGAGCTTTTTATCGAGATTCCAGAAACTGCAACCGTCGGGTCCCTGAAGgtatgataaaatcctattctgccatacacacaaaaatcctctaccatattcagatgttaatgatgagtggcatctgcttctgtatgtgtgttcttggcatgctgcatcatttggtgtgatcattattgcatttttcacataagttgggctgcagctcttacaacaatttgctctgcag
upper sequence: AT5G59430.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA13G41210.1 (Glycine max), 5'ss of exon 8
--------------------TGAAACTACGGATCAAGTCGTTCAGGGTGCCTGAGCTTTTCATAGAGATTCCAGAAACTGCTACTGTTGGCTCATTGAAGgta--acattacacagctcttcctttc------gcctcctattaagaaagtaagttcttatggtc-----ctttggcttctgcag---------------------------------------------------------------------------
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GATGTCTTTCTTTTATCCAGTGAAGCTTAGGATCAAATCATTTAGAGTGCCCGAGCTTTTTATCGAGATTCCAGAAACTGCAACCGTTGGGTCCTTGAAGgtatgataaaattctattctgccatacacacaagcatcctctcccatattcagatgttaatgatgggtggcgtctgtttctgtatctgtgagttcgtggcatgctgcatcatgtggtgtgatcattattgcatatttcacataagtcgtttgctctgcag
upper sequence: AT5G59430.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA12G06680.1 (Glycine max), 5'ss of exon 5
TGAAACTACGGATCAAGTCGTTCAGGGTGCCTGAGCTTTTCATAGAGATTCCAGAAACTGCTACTGTTGGCTCATTGAAGgt--aacattacacagctcttcctttcgcctcctattaagaaagt---aagttcttatg-gtcctttggcttctgcag-----------------------------------------------------------------------------------------------------
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TGAATCTTAGGATCAAGTCATTTAGAGTGCCAGAGCTTTTTATAGAGGTTCCAGAAACTGCAACAATTGGGTCCTTGAAGgtataatagttttatatttttccatccacataccatcctaccttttttagatgttcacaaggaatgccatttgtgtaatttataagctgcatttacattttaataatccattgcatttgcatgtatcttccatcacaagttcagttgagctgtattttttacaacattttggtctgcag
upper sequence: AT5G59430.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA11G14760.1 (Glycine max), 5'ss of exon 6
TGAAACTACGGATCAAGTCGTTCAGGGTGCCTGAGCTTTTCATAGAGATTCCAGAAACTGCTACTGTTGGCTCATTGAAGgtaacattacacagctcttcctttcgcctcctattaagaaagtaagttcttatggtcctttggcttctgcag----------------------------------------------------------------------------------------------------------------------
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TGAATCTTAGGATCAAGTCATTTAGAGTGCCAGAGCTTTTTATAGAGGTTCCAGAAACTGCAACAATTGGGTCCTTGAAGgtataat-----agttttatattttgcc----attcacataccatcttcttactatttttagatgttcacgaggaatgtcatttgtgtaatttataagttgcatttacatttcaataatccattgcatttgcatgtatcttctactcaagttcagttgggctgtattttttacaacattttggtctgcag
upper sequence: AT5G59430.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv06s0004g04940.t01 (Vitis vinifera), 5'ss of exon 6
TGAAACTACGGATCAAGTCGTTCAGGGTGCCTGAGCTTTTCATAGAGATTCCAGAAACTGCTACTGTTGGCTCATTGAAGgtaacattacacagctcttcctttcgcctcctattaag-----aaagtaagttcttatg--gtcctttggcttctgcag-----------------------
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TGAAGCTTAGGATCAAGTCTTTCAGGGTGCCAGAGCTCTTTATAGAGATTCCAGAAACTGCAACTGTTGGTTCCCTCAAGgta-tattg-atatttcattctgattgttttgattaaagtatcatactaaggccttgtctcatctcatgctatttggaagatgtgtaacaagactacgtgaaMapped 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|125049970|gb|EL122239.1|EL122239EST: CTGAGCTTTTCATAGAGATTCCAGAAACTGCTACTGTTGGCTCATTGAAG AGAATGGTGATGGAAGCAGTGAGCACTTT
genomic: CTGAGCTTTTCATAGAGATTCCAGAAACTGCTACTGTTGGCTCATTGAAGgtaacattac ... gcttctgcagAGAATGGTGATGGAAGCAGTGAGCACTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAAACTACGGATCAAGTCGTTCAGGGTGCCTGAGCTTTTCATAGAGATTCCAGAAACTGCTACTGTTGGCTCATTGAAGgtaacattacacagctcttcctttcgcctcctattaagaaagtaagttcttatggtcctttggcttctgcag
- - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG