Sequence
atgc intronic sequence ATGC exonic sequence...tcttggaagttgaatttttaatcttctcaagaactgacaaatatttttttttgtttttgtgcgtgtgtgttaataaaatatccttaaaacaaaattaaagGAGCAACGTTGCTGGAGATTAAGAAGTCATTCAAAGATGTGAACAATGTTCTTTATGACTGGACAACTTCACCTTCTTCGGATTATTGTGTCTGGAGAGG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G26330.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G26330.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA14G11220.1 (Glycine max), 3'ss of exon 1
------tcttggaagttgaatt-tttaatcttctcaagaactgacaaatatttttttttgtttttgtgcgtgtgtgttaataaaatatccttaaaacaaaattaaagGAGCAACGTTGCTGGAGATTAAGAAGTCATTCAAAGATGTGAACAATGTTCTTTATGACTGGACAACTTCACCTTCTTCGGATTATTGTGTCTGGAGAGG
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tttattaatatgatgtggaagaacttgattttcttt-gacttaaaggttcaaactatgttctgatctgcatggctaatgttagaatactttttca------ttgaagGAGCAACGTTGTTAGAGATAAAGAAGTCATTCAGGGATGTGGATAATGTTCTCTATGATTGGACTGATTCACCATCATCAGATTATTGTGCCTGGAGAGG
upper sequence: AT2G26330.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA06G05900.1 (Glycine max), 3'ss of exon 2
tcttggaagttgaatttttaatcttctcaagaactgacaaatatttttttttgtttttgt--------------gcgtgtgtgttaata-aaatatccttaaaacaaaattaaagGAGCAACGTTGCTGGAGATTAAGAAGTCATTCAAAGATGTGAACAATGTTCTTTATGACTGGACAACTTCACCTTCTTCGGATTATTGTGTCTGGAGAGG
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--------gtgagtcattcactctaaccaaacacggtgttatttttttttgttcctctgtttcacaagctcaaggtatgagtatgagtatgaatatctgaaattctgaattgaagGAGAAACGTTGTTGGAGATAAAGAAGTGGTTCAGGGATGTGGATAACGTCCTGTATGACTGGACAGACTCAACTTCTTCTGATTATTGTGTTTGGAGAGG
upper sequence: AT2G26330.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA17G34380.1 (Glycine max), 3'ss of exon 2
-tcttggaagttgaatttttaatcttctcaagaactgacaaatatttttttttgtttttgtgcgtgtgtgttaataaaatatccttaaaacaaaattaaagGAGCAACGTTGCTGGAGATTAAGAAGTCATTCAAAGATGTGAACAATGTTCTTTATGACTGGACAACTTCACCTTCTTCGGATTATTGTGTCTGGAGAGG
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tttattaatatgatgtgtaagaacttgatttcatttgacttcaaggttcaaactatgttctgt-tctgcattgctaatgtttgaatactttttcgttgaagGAGCAACGTTGTTAGAGATAAAGAAGTCATTTAGAGATGTGGATAACGTGCTCTATGATTGGACTGACTCACCATCATCAGATTATTGTGCCTGGAGAGG
upper sequence: AT2G26330.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv04s0008g01970.t01 (Vitis vinifera), 3'ss of exon 1
tcttggaagttgaattttt-aatcttct-caagaactgacaaatattttttt--ttgtttttgtgcgtgtgtgttaataaaatatccttaaaacaaa-attaaagGAGCAACGTTGCTGGAGATTAAGAAGTCATTCAAAGATGTGAACAATGTTCTTTATGACTGGACAACTTCACCTTCTTCGGATTATTGTGTCTGGAGAGG
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-----gtagtagggtttttgaatcatatatagggtttgattttgggtgatttgatggtgtgttcacagtaacctaactattatttttttgttttgtttgtcaaagGGGCGACACTGTTGGAGATAAAGAAGTCATTTAGGGATGTTGACAATGTTCTATATGACTGGACTGATTCACCATCTTCAGACTACTGTGTTTGGAGAGGMapped 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|152033916|gb|BP819805.2|BP819805EST: TGGGTTTCTCTTCTGCTTGAGCTTAGTAGCTACTGTGACTTCAGAGGAGG GAGCAAGGTTGCTGGAGATTAAGAAGTCGTTCAAAGATGTGAACAATGTTC
genomic: TGGGTTTCTCTTCTGCTTGAGCTTAGTAGCTACTGTGACTTCAGAGGAGGgtcagttatt ... aaaattaaagGAGCAACGTTGCTGGAGATTAAGAAGTCATTCAAAGATGTGAACAATGTTC
EST:
gi|152034471|gb|BP829631.2|BP829631EST: TGGGTTTCTCTTCTGCTTGAGCTTAGTAGCTACTGTGACTTCAGAGGAGG GAGCAACGTGGCTGGAGATTAAGAAGTCATTCAAAGATGTGAACAATGTTC
genomic: TGGGTTTCTCTTCTGCTTGAGCTTAGTAGCTACTGTGACTTCAGAGGAGGgtcagttatt ... aaaattaaagGAGCAACGTTGCTGGAGATTAAGAAGTCATTCAAAGATGTGAACAATGTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttttgtttttgtgcgtgtgtgttaataaaatatccttaaaacaaaattaaagGAGCAACGTTGCTGGAGATTAAGAAGTCATTCAAAGATGTGAACAATGTTCTTTATGACTGGACAACTTCACCTTCTTCGGATTATTGTGTCTGGAGAGG
tgttaat putative branch site (score: 3)
tgtgttaataaaatat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttggaagttgaatttttaatcttctcaagaactgacaaatatttttttttgtttttgtgcgtgtgtgttaataaaatatccttaaaacaaaattaaagGAGCAACGTTGCTGGAGATTAAGAAGTCATTCAAAGATGTGAACAATGTTCTTTATGACTGGACAACTTCACCTTCTTCGGATTATTGTGTCTGGAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - -caagaac
- - - - - - - - - - - - - - - - - tgacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttaaa