Sequence
atgc intronic sequence ATGC exonic sequenceCGAGCTCGAGCGGTTGACTCGAGTTTTCACTCAGAAGATTCATGATCTCATTGGGATTCATACTGATGTTCCAGCTCCAGATATGGGCACTGGTCCTCAGgttcttaaactctcttcagaacgtttccaaaatgttctgtgtttttttttgaaaccatctttcaactttttcccttggtggaatttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G18170.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G18170.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os03g58040.2 (Oryza sativa), 5'ss of exon 3
CGAGCTCGAGCGGTTGACTCGAGTTTTCACTCAGAAGATTCATGATCTCATTGGGATTCATACTGATGTTCCAGCTCCAGATATGGGCACTGGTCCTCAGgttctt---------aaactctct---tcagaacgtttccaaaatgt-----tctgtgtttttttttgaaaccatctttcaactttttcccttggtggaatttgcag
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CGAGCTAGAGCGACTTACCCGTGTTTTCACCCAGAAAATCCACGACTTGATTGGCATTCATACAGATGTTCCAGCTCCAGATATGGGAACCAACTCTCAGgttattttcctttgcatatcctctcatttgagactttggtgagaaataggcatatgcatatgtttattctgatgtggcttgttttttttcatggatgtag-------
upper sequence: AT5G18170.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G178415_T02 (Zea mays), 5'ss of exon 4
CGAGCTCGAGCGGTTGACTCGAGTTTTCACTCAGAAGATTCATGATCTCATTGGGATTCATACTGATGTTCCAGCTCCAGATATGGGCACTGGTCCTCAGgttcttaaactctcttcagaacgtttccaaaatgttctgtgt---ttttttttgaaaccatctttcaactttttcccttggtggaatttgcag---------------
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TGAGCTTGAGAGGCTTACCCGAGTTTTTACTCAGAAAATCCATGACTTGATTGGCATCCATACTGACGTTCCAGCTCCAGATATGGGCACCAACTCACAGgttattttcctttatgtatcatttcatgaaggactttcatgagaattagttatcaataaatatatgtttattctaatatggcctattttgtttgctttatggatgcagMapped 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|116386886|gb|EG429478.1|EG429478EST: TTGGGATTCATACTGATGTTCCAGCTCCAGATATGGGCACTGGTCCTCAG ACAATGGCTTGGATTCTTGATGAATACTCTAAGTTTCATGGATACTCGCCT
genomic: TTGGGATTCATACTGATGTTCCAGCTCCAGATATGGGCACTGGTCCTCAGgttcttaaac ... gaatttgcagACAATGGCTTGGATTCTTGATGAATACTCTAAGTTTCATGGATACTCGCCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGAGCTCGAGCGGTTGACTCGAGTTTTCACTCAGAAGATTCATGATCTCATTGGGATTCATACTGATGTTCCAGCTCCAGATATGGGCACTGGTCCTCAGgttcttaaactctcttcagaacgtttccaaaatgttctgtgtttttttttgaaaccatctttcaactttttcccttggtggaatttgcag
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