Sequence
atgc intronic sequence ATGC exonic sequenceTCCTGAAAAGTTCAAAGGAGTGAGGAAAGTGATCAATGCTGTTTCTGTTATTGTTGGTCCAAAGGAAGGAGATACACCTGAGAGACAAAAATATAATCAGgtcggtgaatttttctgaatggaatttcttaaaagctttgaactttagattctagctttgagaaatgactctgtttggatattggttataatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G18810.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G18810.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G12480.1 (Glycine max), 5'ss of exon 5
TCCTGAAAAGTTCAAAGGAGTGAGGAAAGTGATCAATGCTGTTTCTGTTATTGTTGGTCCAAAGGAAGGAGATACACCTGAGAGACAAAAATATAATCAGgtcggtgaatt---tttct-----------gaatggaatttcttaaaagctttgaactttagat-tctagctttgagaaatgactctgtttggatattggttataatgcag------------------------------------------------------------------------------------------
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CCCTGAATACTTTAAAGGCGTGAAGAAAGTGATTAATGCTGCTTCTGTCATTGTTGGTCCTAAGGAAGGAGACACTCCAGACAGATCAAAATACAGCCAAgtatgtccattagctttattaagacagcagaaatttgatttttcttctgcagtaatccatgcttatctatcactgagaaatgggtgtgtt--aatgttgacttatatcaacctgttgtgtaaattgttttagctacatgattctttgctgaagacttcatatttatttttctctaacagaatgaaattatttatggtgtag
upper sequence: AT4G18810.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA05G29330.1 (Glycine max), 5'ss of exon 5
TCCTGAAAAGTTCAAAGGAGTGAGGAAAGTGATCAATGCTGTTTCTGTTATTGTTGGTCCAAAGGAAGGAGATACACCTGAGAGACAAAAATATAATCAGgtcggtgaatttttctgaatggaatttcttaaaagctttgaactttagattctagctttgagaaatgactctgtttggatattggttataatgcag------
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CCCTGAATACTTTAAAGGCGTGAAGAAAGTGATTAATGCTGCTTCTGTCATTGTTGGCCCCAAGGAAGGAGACACTCCAGACAGAGCAAAATACAGCCAAgtatgtccattagctctattaagacag--tagaaatttgatttttcttatgcaataatccatgcttatctatcactgagaaatggatgtgttaacgttgact
upper sequence: AT4G18810.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv10s0003g01640.t01 (Vitis vinifera), 5'ss of exon 5
TCCTGAAAAGTTCAAAGGAGTGAGGAAAGTGATCAATGCTGTTTCTGTTATTGTTGGTCCAAAGGAAGGAGATACACCTGAGAGACAAAAATATAATCAGgtcgg---tgaatttttctgaatggaatttcttaaaagctttgaactttagattctagct--ttgagaaatgactctgtttggatattggttataatgcag--------------------------------------------------------------------------------------------
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CCCCGAGTACTTCAAAGGAGTGAGGAAAGTTATCAATGCTGTTTCAGTCATTGTTGGCCCTAAGGAAGGAGACACTCCTGACAGGGCAAAGTACAGTCAGgtatgatttgagcattacaaaatgacagaaatttgtaggttctgcttgttgatgaaatataattggcaaatcataaaaaatattaatctaatatccttcaatttgttgtgcttcattattttcttacatatttcccaatgtttttctttctcttcccatcttaactcttgcactccaatttggcaatgtgcagMapped 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|124998232|gb|EL070501.1|EL070501EST: CAAAAATATAATCAG GGAGTCAGGTTCTTCGAGCCAGAG
genomic: CAAAAATATAATCAGgtcggtgaat ... tataatgcagGGAGTCAGGTTCTTCGAGCCAGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCTGAAAAGTTCAAAGGAGTGAGGAAAGTGATCAATGCTGTTTCTGTTATTGTTGGTCCAAAGGAAGGAGATACACCTGAGAGACAAAAATATAATCAGgtcggtgaatttttctgaatggaatttcttaaaagctttgaactttagattctagctttgagaaatgactctgtttggatattggttataatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT