Sequence
atgc intronic sequence ATGC exonic sequenceAAGGAAAGGGGAGGATAAAGTATCTTCTGCAGCAAACTGAGTTATTTGCACATTTTGCTAAAAGTGACCCGTCTCCGTCCCAGAAGAAGGGAAAAGGAAGgtgtgttgagtgcaacttatctcaaaataaattgtggttattcatattaagtttccagaaatataatttattgggtttcactttatcgtcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G18620.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G18620.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: 13113.m00246 (Oryza sativa), 5'ss of exon 3
---AAGGAAAGGGGAGGATAAAGTATCTTCTGCAGCAAACTGAGTTATTTGCACATTTTGCTAAAAGTGACCCGTCTCCGTCCCAGAAGAAGGGAAAAGGAAGgtgtgttgagtgcaacttatctcaaaataaattgtggttattcatattaagtttccagaaat---ataa---tttattgggtttcactttatcgtcag--
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ATAAAGGGAAAGGACGATTGAAGTACCTACTGCAGCAAACTGAAATATTTGCACATTTTGCCAAAGGGAACCAATCAAAAG---AGAAGAAACCGCGTGGAAGgtaaaactggttttgtttgtgtagttagtactttactttgtgtgttcaaccatcctggaaattgcatagatctttgctgttgtttgtcgtgctgctggaa
upper sequence: AT5G18620.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 5'ss of exon 3
---AAGGAAAGGGGAGGATAAAGTATCTTCTGCAGCAAACTGAGTTATTTGCACATTTTGCTAAAAGTGACCCGTCTCCGTCCCAGAAGAAGGGAAAAGGAAGgtgtgttgagtgcaacttatctcaaaataaattgtggttattcatattaagtttccagaaat---ataa---tttattgggtttcactttatcgtcag--
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ATAAAGGGAAAGGACGATTGAAGTACCTACTGCAGCAAACTGAAATATTTGCACATTTTGCCAAAGGGAACCAATCAAAAG---AGAAGAAACCGCGTGGAAGgtaaaactggttttgtttgtgtagatagtactttactttgtgtgttcaaccatcctggaaattgcatagatctttgctgttgtttgtcgtgctgctggaa
upper sequence: AT5G18620.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 5'ss of exon 3
---AAGGAAAGGGGAGGATAAAGTATCTTCTGCAGCAAACTGAGTTATTTGCACATTTTGCTAAAAGTGACCCGTCTCCGTCCCAGAAGAAGGGAAAAGGAAGgtgtgttgag--tgcaacttatctcaaaataaattgtggttattcatattaagtttccag-aaatataatttattgggtttcac--tttatcgtcag---
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ACAAGGGGAAGGGACGTCTGAAGTATCTCCTGCAGCAAACTGAAATATTTGCTCATTTTGCGAAAGGAAACCAATC---GACAGAGAAGAAATCACGTGGAAGgtatattcttccttggataaatatgctaaccccatactttccattaagggaagttactgctaaccatttgtcatttgttacaacagtacagtgccaatatMapped 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|124846637|gb|EH931074.1|EH931074EST: CATTTTGCTAAAAGTGACCCGTCTCCGTCCCAGAAGAAGGGAAAAGGAAG GGGTCGCCATTCTTCCAAACTAACCGAGGAAGAGGAAGATGAAGAGTGTTT
genomic: CATTTTGCTAAAAGTGACCCGTCTCCGTCCCAGAAGAAGGGAAAAGGAAGgtgtgttgag ... ttatcgtcagGGGTCGCCATTCTTCCAAACTAACCGAGGAAGAGGAAGATGAAGAGTGTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGGAAAGGGGAGGATAAAGTATCTTCTGCAGCAAACTGAGTTATTTGCACATTTTGCTAAAAGTGACCCGTCTCCGTCCCAGAAGAAGGGAAAAGGAAGgtgtgttgagtgcaacttatctcaaaataaattgtggttattcatattaagtttccagaaatataatttattgggtttcactttatcgtcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA