Sequence
atgc intronic sequence ATGC exonic sequenceGAGCAGATGGGCCTGTGTTAACTTCTCACGCAGCGTTCAAGAAAACGTTGCTCGTGGATTTTGTAATGAACTTGGTCAGATGTGTGAAGTCTCAGGCATGgtaataatattcatctttttttcttttcttgttgcattgtttgaattctcttttaactcgatgtgattcttatcagaaagctttgcttcgtttatcattgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G43810.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G43810.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA10G38770.1 (Glycine max), 5'ss of exon 12
GAGCAGATGGGCCTGTGTTAACTTCTCACGCAGCGTTCAAGAAAACGTTGCTCGTGGATTTTGTAATGAACTTGGTCAGATGTGTGAAGTCTCAGGCATGgtaataatattcatctttttttcttttcttgttgcattgtttgaattctcttttaactcgatgtgattcttatcagaaagctttgcttcgtttatcattgtag
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TAGCCGGTGGGCATGCATAAATTTTTCAAGGAGCGTGCAAGATAGTGTTGCTCGCACTTTTTGTAATGAACTTGCTCAAATGTGTCAAGTATCTGGCATGgtaataatcttcaatgtttttt--tttataattattttgtctgtgttggaagtgta---gaaagaaattttctgatatttagcaacattgattttc-ttgcag
upper sequence: AT5G43810.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 5'ss of exon 11
GAGCAGATGGGCCTGTGTTAACTTCTCACGCAGCGTTCAAGAAAACGTTGCTCGTGGATTTTGTAATGAACTTGGTCAGATGTGTGAAGTCTCAGGCATGgtaataatattcatctttttttcttttcttgttgcattgtttgaattctcttttaactcgatgtgattcttatcagaaagctttgcttcgtttatcattgtag
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TAGCCGGTGGGCATGTATCAACTTCTCTCGGAGTGTGCAAGAGAGTGTTGCTCGTGGGTTTTGTAATGAATTGGCTCAAATGTGTCAAGTGTCTGGCATGgtattgttctctctgcttcaatttttaaatggtttatagat-aagtcatttgttgtttcctgttgagtggtaattttctgcatttgtttgt--aggaatttaaMapped 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|86072813|gb|DR368570.1|DR368570EST: CTCGTGGATTTTGTAATGAACTTGGTCAGATGTGTGAAGTCTCAGGCATG GAGTTTAATCCAGAACCCGTGATACCAATATATAGTGCGAGGCCCGATCAA
genomic: CTCGTGGATTTTGTAATGAACTTGGTCAGATGTGTGAAGTCTCAGGCATGgtaataatat ... atcattgtagGAGTTTAATCCAGAACCCGTGATACCAATATATAGTGCGAGGCCCGATCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGCAGATGGGCCTGTGTTAACTTCTCACGCAGCGTTCAAGAAAACGTTGCTCGTGGATTTTGTAATGAACTTGGTCAGATGTGTGAAGTCTCAGGCATGgtaataatattcatctttttttcttttcttgttgcattgtttgaattctcttttaactcgatgtgattcttatcagaaagctttgcttcgtttatcattgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG