Sequence
atgc intronic sequence ATGC exonic sequenceTTCAATCTAAAGCGTGGTGGTCAGCGCGTAGCAACTATGCTTATGTATCTAACTGATGACGTCGAAGGAGGAGAAACTTATTTCCCTTTGgtataacactttctctctgttcatgcaaatttcagaaaacaaaataaaccaatggtgtaatatctctctctctctacttgaaatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G43080.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G43080.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA20G39250.2 (Glycine max), 5'ss of exon 10
TTCAATCTAAAGCGTGGTGGTCAGCGCGTAGCAACTATGCTTATGTATCTAACTGATGACGTCGAAGGAGGAGAAACTTATTTCCCTTTGgtataacactttctctctgt------tcatgcaa---atttcagaaaacaaaataaaccaatggtgtaatatctctctctctctacttga---aatgcag
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TTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTAAGTGACAATATTGAAGGAGGAGAAACATATTTCCCATTGgtaagcttcttgttttctgaaatatgtcatttaacatattttggttgttgctgtatacatatgaagcagcatatgaatagtctgactcaagcaaatatta
upper sequence: AT2G43080.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv05s0062g01220.t01 (Vitis vinifera), 5'ss of exon 10
TTCAATCTAAAGCGTGGTGGTCAGCGCGTAGCAACTATGCTTATGTATCTAACTGATGACGTCGAAGGAGGAGAAACTTATTTCCCTTTGgta------taacactttctctctgtt--catgcaaatttcagaaaacaaaataaacca-atggtgtaatatctctctctctctacttgaaatgcag---
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TTTAACTTGAAGCGTGGTGGTCAACGAGTAGCAACAATGCTCATTTATTTAAGTGATAATGTTGAGGGGGGAGAAACATATTTCCCTATGgtaattagttagaacttgatacttattgttcttttaatgttgtaaatcaaaactttcaacaacttgaactattttctgcaatttggttctatctaggggcMapped 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|19798217|gb|AU229725.1|AU229725EST: GGAGAAACTTATTTCCCTTTG GCTGGTGATGGTGATTGCACCTGTGGTGGCAAAATCATGAAAGGCATCTCT
genomic: GGAGAAACTTATTTCCCTTTGgtataacact ... tgaaatgcagGCTGGTGATGGTGATTGCACCTGTGGTGGCAAAATCATGAAAGGCATCTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTCAATCTAAAGCGTGGTGGTCAGCGCGTAGCAACTATGCTTATGTATCTAACTGATGACGTCGAAGGAGGAGAAACTTATTTCCCTTTGgtataacactttctctctgttcatgcaaatttcagaaaacaaaataaaccaatggtgtaatatctctctctctctacttgaaatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA