Sequence
atgc intronic sequence ATGC exonic sequenceAATTGAGTCAAGAAGAGTCTGAGGATGTTCTCTTCAAGGAGgtacagaattacaagcccgttctcgctttctctcatgggcttttccttcatctgatccctccttcatgttcccttttgtatcgacttttgttcttctatgtatcttttggatctattagagataattttgtcagctcatcttggcctttctccattctcaaagctatgaaatttggaacatttggcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G13260.1 |
intron # | 15 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G13260.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA10G44630.1 (Glycine max), 5'ss of exon 15
AATTGAGTCAAGAAGAGTCTGAGGATGTTCTCTTCAAGGAGgtacagaattacaagcccgttctcgctttctctcatgggcttttccttcatctgatccctccttcatgttcccttttgtatcgacttttgttcttctatgtatc-ttttggatctattagagataattttgtcagctcatcttggcctttctccattctcaaagctatgaaatttggaacatttggcag
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AATTGAGTCCAGAGGAATCTGAGGATGTTCTTTTCAAGGAGgta----------------ttctg---ttctcttatgaactattcatgctatttattatt-----atcagcttcttggaatgtctgtatattgcagtatatttcattttttctctacgagaagg-----------------------------------------------------------------
upper sequence: AT5G13260.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: Vv01s0244g00070.t01 (Vitis vinifera), 5'ss of exon 15
AATTGAGTCAAGAAGAGTCTGAGGATGTTCTCTTCAAGGAGgtacagaattacaagcccgttctcgctttctctcatgggcttttccttcatctgatccctccttcatgttcccttttgtatcgacttttgttcttctatgtatcttttggatctattagagataattttgtcagctcatcttggcctttctccattctcaaagctatgaaatttggaacatttggcag
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AATTGAGTACAGAGGAGTCTGAGGATGTTCTTTTCAAGGAGgtgtggaa----------attgtttcttagttatttgtgtttatctttcagtaatcctccagaatataagttgactttcctccaatgacacatgtatacttgtctttaga------------------------------------------------------------------------------Mapped 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|19740667|gb|AU226020.1|AU226020EST: AGAGTCTGAGGATGTTCTCTTCAAGGAG GCTTGGCTCACGTACTTCTGGAGAAGAGCACAATCCCTTGGCATAGAAGTG
genomic: AGAGTCTGAGGATGTTCTCTTCAAGGAGgtacagaatt ... catttggcagGCTTGGCTCACGTACTTCTGGAGAAGAGCACAATCCCTTGGCATAGAAGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATTGAGTCAAGAAGAGTCTGAGGATGTTCTCTTCAAGGAGgtacagaattacaagcccgttctcgctttctctcatgggcttttccttcatctgatccctccttcatgttcccttttgtatcgacttttgttcttctatgtatcttttggatctattagagataattttgtcagctcatcttggcctttctccattctcaaagctatgaaatttggaacatttggcag
- - - - AAGAAG
- - - - - - - - - - GAGGAT
- - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - AAGGAG