Sequence
atgc intronic sequence ATGC exonic sequenceGAACCATGTTGTTCATCTTTCTTATCTTGAGGTTTATAATGAAACTGTTAGAGATTTGCTTTCACCTGGTAGACCTCTCATTCTCCGTGAAGATAAGCAGgtaaacataaaactgacattacattttgtctctttgagctttagataagaattaagaacacaatggtctcattcgttttcatttctctgaatgtgaacgaaaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G18550.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G18550.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA05G07770.1 (Glycine max), 5'ss of exon 2
GAACCATGTTGTTCATCTTTCTTATCTTGAGGTTTATAATGAAACTGTTAGAGATTTGCTTTCACCTGGTAGACCTCTCATTCTCCGTGAAGATAAGCAGgtaaacataaaactgacattacattttgtctctttgagctttagataagaattaagaacacaatggtctcattcgttttcatttctctgaatgtgaacgaaaacag
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AAACCATGTGGTTCATTTGTCCTATCTTGAGGTTTATAATGAAACTGTTAGGGATTTGCTTTCACCTGGAAGGCCTCTCGTTCTTAGAGAAGATAAACAGgtcccctttctaagttctcca-agtttggctgttgatgtgttgaattc--attacttttgaaagaatgtagatggttcatgttattgcttatgtaaatctgtt---
upper sequence: AT1G18550.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA18G22930.1 (Glycine max), 5'ss of exon 3
GAACCATGTTGTTCATCTTTCTTATCTTGAGGTTTATAATGAAACTGTTAGAGATTTGCTTTCACCTGGTAGACCTCTCATTCTCCGTGAAGATAAGCAGgtaaacataaaactgacattacattttgtctctttgagctttagataagaattaagaacacaatggtctcattcgttttcatttct-ctgaatgtgaacgaaaacag
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AAACCATGCGGTTCATTTGTCCTATCTTGAGGTTTATAATGAAACTGTCAGGGATTTGCTTTCACCTGGAAGACCTCTGGTTCTCAGAGAAGATAAACAGgtccacttg---cttatcttataaataatgt----aaaatcttcagaaagattgaagagagaagctactgaacattatttattcctgctgagtgacaatcatattat
upper sequence: AT1G18550.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA17G13240.1 (Glycine max), 5'ss of exon 2
GAACCATGTTGTTCATCTTTCTTATCTTGAGGTTTATAATGAAACTGTTAGAGATTTGCTTTCACCTGGTAGACCTCTCATTCTCCGTGAAGATAAGCAGgtaaacataaaactgacattacattttgtc-tctttgagctttagataagaatt----aagaacaca-atggtctcattcgttttcatttctctgaatgtgaacgaaaacag
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AAACCATGTGGTTCATTTGTCCTATCTTGAGGTTTATAATGAAACTGTTAGGGATTTGCTTTCGCCAGGAAGGCCTCTCGTTCTTAGAGAGGATAAACAGgtgcccttttaactt-ctccaagttgggttgttgatgtgtttaattcaagagttttgaaagaatgtagatggttcatgctgtataaatctgtttacagttt-----------
upper sequence: AT1G18550.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv17s0000g04330.t01 (Vitis vinifera), 5'ss of exon 2
GAACCATGTTGTTCATCTTTCTTATCTTGAGGTTTATAATGAAACTGTTAGAGATTTGCTTTCACCTGGTAGACCTCTCATTCTCCGTGAAGATAAGCAGgtaaacataaaactgacattacattttgtctctttga-gctttagataagaattaagaacacaatggt-ctcattcgtt--ttcatttctctgaatgtgaacgaaaacag--------------------------------------------
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GAATCATGTGGTTCACCTCTCCTATCTTGAGGTCTATAATGAAACTGTCAGGGATTTGCTTGCCCCTGGAAGGCCTCTTGTCCTGAGAGAAGATAAACAGgtctgt------ttcctatttcgtcatttctcatgaatgattcagaagaatatctactacatttttgcatttgtttgttgttttgttgatcatttctcacacagaaataacttgaatgataaactgagacaaaaatggttcaaatacattgcagMapped 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|125216406|gb|EL230489.1|EL230489EST: GAGATTTGCTTTCACCTGGTAGACCTCTCATTCTCCGTGAAGATAAGCAG GGAATTGTGGCTGCTGGTCTCACTCAATATAGAGCTTACTC
genomic: GAGATTTGCTTTCACCTGGTAGACCTCTCATTCTCCGTGAAGATAAGCAGgtaaacataa ... acgaaaacagGGAATTGTGGCTGCTGGTCTCACTCAATATAGAGCTTACTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAACCATGTTGTTCATCTTTCTTATCTTGAGGTTTATAATGAAACTGTTAGAGATTTGCTTTCACCTGGTAGACCTCTCATTCTCCGTGAAGATAAGCAGgtaaacataaaactgacattacattttgtctctttgagctttagataagaattaagaacacaatggtctcattcgttttcatttctctgaatgtgaacgaaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA