Sequence
atgc intronic sequence ATGC exonic sequenceCAGAGGAAAGATAGTTTCAGGATCAGATGATCTATCTGTGATCGTATGGGACAAACAGACAACTCAACTTCTAGAAGAACTGAAAGGCCATGATTCACAGgtttccactacattctagtgtttttctgtcattagtacacagttcatgagtgggaagtattaatggtcaacacaaaataaacatataggcgtggacataa...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G49040.3 |
intron # | 25 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G49040.3 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: GLYMA05G35210.1 (Glycine max), 5'ss of exon 8
CAGAGGAAAGATAGTTTCAGGATCAGATGATCTATCTGTGATCGTATGGGACAAACAGACAACTCAACTTCTAGAAGAACTGAAAGGCCATGATTCACAGgtttccactacattctag-tgtttttctgtcattagtacacagttcatgagtgggaagtattaatggtcaacacaaaataaacata--taggcgtggacataa--------------------
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TAGGGGGAAGGTGGTGTCAGGATCTGATGATCAGTCTGTTTTGGTGTGGGATAAGCAAACAACTCAACTTCTAGAAGAGCTTAAAGGCCATGATGGACCGgtattttttactttaaaaatatttggtttgttctactataaacagtataggtgttgtaaattcgttacaaatatacagaaaggataattgaaacttaattcagacagccaaccaaccatgtag
upper sequence: AT1G49040.3 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: GLYMA08G04510.1 (Glycine max), 5'ss of exon 25
CAGAGGAAAGATAGTTTCAGGATCAGATGATCTATCTGTGATCGTATGGGACAAACAGACAACTCAACTTCTAGAAGAACTGAAAGGCCATGATTCACAGgtttccactacattctag-tgtttttctgtcattagtacacagttcatgagtgggaagtattaatggtcaac--acaaaataaacatataggcgtggacataa--------------------
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TAGGGGGAAGGTGGTGTCAGGATCTGATGATCAGTCTGTTTTGGTGTGGGATAAGCAAACAACTCAACTTCTAGAAGAGCTTAAAGGCCATGATGGACCGgtatttcttactttaaaaatatttggtttgttctaatataaacagtataggtgttgtaaattcattacaaatatacagaatggataattgaaacttaattcagatagccaaccaaccatgtag
upper sequence: AT1G49040.3 (Arabidopsis thaliana), 5'ss of exon 25
lower sequence: Vv17s0000g03950.t01 (Vitis vinifera), 5'ss of exon 25
CAGAGGAAAGATAGTTTCAGGATCAGATGATCTATCTGTGATCGTATGGGACAAACAGACAACTCAACTTCTAGAAGAACTGAAAGGCCATGATTCACAGgtttccactacattctagtgtttttctgtcattagtacacagttcatgagtgggaagtattaatggtcaacacaaaataaacatataggcgtggacataa-------
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TCGTGGGAAAGTGGTATCAGGATCTGATGATCAGTCTGTTATTGTATGGGATAAACAAACATCTCAACTTCTAGAAGAGCTAAAAGGCCATGATGGACAGgtttgagttgc--caaagcttcatccctttgataatgcacaaagcactct----aaacaataaaggtgtatatttgg-agagggagagggagggacataaaattttaMapped 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|164124775|gb|ES163174.1|ES163174EST: ACAAACAGACAACTCAACTTCTAGAAGAACTGAAAGGCCATGATTCACAG GTAAGTTGTGTCAAGATGCTTTCAGGCGAACGTGTCCTCA
genomic: ACAAACAGACAACTCAACTTCTAGAAGAACTGAAAGGCCATGATTCACAGgtttccacta ... tattctgcagGTAAGTTGTGTCAAGATGCTTTCAGGCGAACGTGTCCTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAGAGGAAAGATAGTTTCAGGATCAGATGATCTATCTGTGATCGTATGGGACAAACAGACAACTCAACTTCTAGAAGAACTGAAAGGCCATGATTCACAGgtttccactacattctagtgtttttctgtcattagtacacagttcatgagtgggaagtattaatggtcaacacaaaataaacatataggcgtggacataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC