Sequence
atgc intronic sequence ATGC exonic sequenceGTCTGTGGGTTTGATCTTCTACGATCTGAGGGCTGTTCATATGTTTGTGATGTCAATGGATGGAGTTTTGTGAAGAACTCATACAAgtaagctagcatctgcatttttattttctttcttaaaatcatagttgtatttataggttaagtttctagaataaatgctgagatggtttttagactggcatgtttcgcctctttcttaactctctaaaagttgagtttcaattttaaagtattcacaaatctcttgcactgtaag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G01310.2 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G01310.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os03g48300.1 (Oryza sativa), 5'ss of exon 11
GTCTGTGGGTTTGATCTTCTACGATCTGAGGGCTGTTCATATGTTTGTGATGTCAATGGATGGAGTTTTGTGAAGAACTCATACAAgtaagctagcatctgcatttttattttctttcttaaaatcatagttgtatttataggttaagtttctagaataaatgctgagatggtttttagactggcatgtttcgcctctttcttaactctctaaaagttgagtttcaattttaaagtattcacaaatctcttgcactgtaag
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GTTTGTGGTTTTGATCTCTTAAGGTGTGATGGAAGATCATATGTTTGTGACGTTAATGGATGGAGCTTTGTGAAGAACTCGTACAAgtaattta----tttaatcctagtgttcttttcttacagactgtctatggaccttaattag--ttctgaaagatttgcgtaagtttttctatcattcag----------------------------------------------------------------------------
upper sequence: AT3G01310.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA19G02260.1 (Glycine max), 5'ss of exon 9
GTCTGTGGGTTTGATCTTCTACGATCTGAGGGCTGTTCATATGTTTGTGATGTCAATGGATGGAGTTTTGTGAAGAACTCATACAAgtaagcta-gcatctgcatttttattttctttcttaaaatcatagttgtatttataggttaagtttctagaataaatgctgagatggtttttagactggcatgtttcgcctctttcttaactctctaaaagttgagtttcaattttaaagtattcacaaatctcttgcactgtaag
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GTTTGTGGGTTTGATCTATTGAGAAGTCAGGGACGCTCATATGTTTGTGATGTGAATGGATGGAGCTTTGTTAAAAATTCATACAAgtaaattttgtaattagattttt-ttgtcagttctgttttgatatcggcagc-atggttcaaaatactttaatagttattcattt--tctttatataaacagaa------------------------------------------------------------------------
upper sequence: AT3G01310.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA13G05060.1 (Glycine max), 5'ss of exon 12
GTCTGTGGGTTTGATCTTCTACGATCTGAGGGCTGTTCATATGTTTGTGATGTCAATGGATGGAGTTTTGTGAAGAACTCATACAAgtaagctagcatctgcatttttattttctttcttaaaatcatagttgtatttataggttaagtttctagaataaatgctgagatggtttttagactggcatgtttcgcctctttcttaactctctaaaagttgagtttcaattttaaagtattcacaaatctcttgcactgtaag
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GTTTGTGGGTTTGATCTATTGAGAAGTCAGGGACGCTCATATGTTTGTGATGTGAATGGATGGAGCTTTGTTAAAAATTCATACAAgtaaatt-----ttgtaattagattttttt-------ggcattgctgttttaatagagtttgatattgagagaga----gagagagtttgaaaatgaagaagatat---tattattcaa--------------------------------------------------------
upper sequence: AT3G01310.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA09G37610.1 (Glycine max), 5'ss of exon 9
GTCTGTGGGTTTGATCTTCTACGATCTGAGGGCTGTTCATATGTTTGTGATGTCAATGGATGGAGTTTTGTGAAGAACTCATACAAgtaagctagcatctgcatttttattttctttcttaaaatcatagttgtatttataggttaagtttctagaataaatgctgagatggtttttagactggcatgtttcgcctctttcttaactctctaaaagttgagtttcaattttaaagtattcacaaatctcttgcactgtaag-------
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GTTTGTGGATTTGATCTCTTGAGATGCGAGGGACGCTCCTATGTTTGTGACGTGAATGGATGGAGCTTTGTTAAAAACTCACACAAgtaa---------tattttgtgatttattgttttgg---cattgttgcat----ggttcaaaatacatcaatagttattcactctgcttgtatctataattggaaaatcttatttacaactctttttgcatgatatctttttggtgaaatttttatca-tttcttgtttgctacttctgaag
upper sequence: AT3G01310.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 5'ss of exon 11
GTCTGTGGGTTTGATCTTCTACGATCTGAGGGCTGTTCATATGTTTGTGATGTCAATGGATGGAGTTTTGTGAAGAACTCATACAAgtaagctagcatctgcatttttattttctttcttaaaatc----atagttgtatttataggttaagtttctagaataaatgctgagatggtttttagactggcatgtttcgcctctttcttaactctctaaaagttgagtttcaattttaaagtattcacaaatctcttgcactgtaag
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GTTTGTGGGTTTGATCTCTTGCGTTGTGAGGGACGCTCATATGTCTGTGATGTGAATGGATGGAGTTTTGTGAAGAACTCTCACAAgtaa-----tatttgttttttgtttctccattttaaatacccctgttactgtatttatgcatttgcattcactttgctgcatatggtttgcttttgcattgtagt--------------------------------------------------------------------------
upper sequence: AT3G01310.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: PP1S112_67V6.1 (Physcomitrella patens), 5'ss of exon 11
GTCTGTGGGTTTGATCTTCTACGATCTGAGGGCTGTTCATATGTTTGTGATGTCAATGGATGGAGTTTTGTGAAGAACTCATACAAgtaagctagcatctgcatttttattttctttcttaaaatcatagttgtatttataggttaagtttctagaataaatgctgagatggtttttagactggcatgtttcgcctctttcttaactctctaaaagttgagtttcaattttaaagtattcacaaatctcttgcactgtaag
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GTGTGCGGGTTTGATTTACTCCGATCACAAGGCCGGTCATATGTTTGTGATGTTAATGGGTGGAGTTTCGTTAAGAACTCTTACAAgtgagttttcat---tatttttactgcttttctaagtat-----ttatgtctttgtggtagtggacca-agtaatcttcttgct--cttctagcactacatgatgctctggtcttgtgatactg-agagactaaatttc---tctaccgcgatcccag-----------------
upper sequence: AT3G01310.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: PP1S70_284V6.1 (Physcomitrella patens), 5'ss of exon 11
GTCTGTGGGTTTGATCTTCTACGATCTGAGGGCTGTTCATATGTTTGTGATGTCAATGGATGGAGTTTTGTGAAGAACTCATACAAgtaagctagca-tctgcatttttattttctttcttaaaatcatagttgtatttataggttaagtttctagaataaatgctgagatggtttttagactggcatgtttcgcctctttcttaactctctaaaagttgagtttcaattttaaagtattcacaaatctcttgcactgtaag
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GTTTGTGGATTTGATTTGCTTCGATCGCAAGGCCGGTCATATGTGTGTGACGTTAATGGGTGGAGTTTTGTTAAGAACTCTTACAAgtaagtaaacaatctgtgcg---attttttcacctaa---tattcatccctctgtaataccagattgaggaatttttctttcccaatgttcta--cgaggatctagtctattgatactgattatattagtgttga-ttccag----------------------------------
upper sequence: AT3G01310.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: EFJ07403 (Selaginella moellendorffii), 5'ss of exon 11
GTCTGTGGGTTTGATCTTCTACGATCTGAGGGCTGTTCATATGTTTGTGATGTCAATGGATGGAGTTTTGTGAAGAACTCATACAAgtaagctagcatctgcatttttattttctttcttaaaatcatagttgtatttataggttaagtttctagaataaatgctgagatggtttttagactggcatgtttcgcctctttcttaactctctaaaagttgagtttcaattttaaagtattcacaaatctcttgcactgtaag
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GTGTGTGGTTTTGACCTCTTGCGATCTCAAGGGAGGTCTTATGTTTGCGATGTCAATGGATGGAGTTTTGTAAAAAACTCGTACAAgtaggcaatgttgtccatgttaaa---cttgctgcaacttgctttcctag-----------------------------------------------------------------------------------------------------------------------------
upper sequence: AT3G01310.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: EFJ19878 (Selaginella moellendorffii), 5'ss of exon 11
GTCTGTGGGTTTGATCTTCTACGATCTGAGGGCTGTTCATATGTTTGTGATGTCAATGGATGGAGTTTTGTGAAGAACTCATACAAgtaagctagcatctgcatttttattttctttcttaaaatcatagttgtatttataggttaagtttctagaataaatgctgagatggtttttagactggcatgtttcgcctctttcttaactctctaaaagttgagtttcaattttaaagtattcacaaatctcttgcactgtaag
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GTGTGTGGTTTTGACCTCTTGCGATCTCAAGGGAGGTCTTATGTTTGCGATGTCAATGGATGGAGTTTTGTAAAAAACTCGTACAAgtaggcaatgttgtccatgttaaa---cttgctgcaacttgctttcttag-----------------------------------------------------------------------------------------------------------------------------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|19874907|gb|AU235738.1|AU235738EST: GATGGAGTTTTGTGAAGAACTCATACAA GTATTATGACGATGCTGCGTGTGTGCCTAAGGAAAATGTGTTTGGATGCAA
genomic: GATGGAGTTTTGTGAAGAACTCATACAAgtaagctagc ... gcactgtaagGTATTATGACGATGCTGCGTGTGTG-CTAAGGAAAATGTGTTTGGATGCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCTGTGGGTTTGATCTTCTACGATCTGAGGGCTGTTCATATGTTTGTGATGTCAATGGATGGAGTTTTGTGAAGAACTCATACAAgtaagctagcatctgcatttttattttctttcttaaaatcatagttgtatttataggttaagtttctagaataaatgctgagatggtttttagactggcatgtttcgcctctttcttaactctctaaaagttgagtttcaattttaaagtattcacaaatctcttgcactgtaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC