Sequence
atgc intronic sequence ATGC exonic sequencegtgagtatgatacccaatggacactattttcattctaaagcatttgaggacgaggagaaagaactgcaaatatcttacagaatgtcttgtgttgatacagTTATAAGGCGTGGGGTTCTCTCTTAGGACAGCAATTATCAGAAAGAGATATTATTGTGGCATGCATTGATTACAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G26120.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G26120.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G18930.1 (Glycine max), 3'ss of exon 4
gtgagtatgatacccaatggacactattttcattctaaagcatttgaggacgaggagaaagaactgcaaatatcttacagaat--gtcttgtgttgatacagTTATAAGGCGTGGGGTTCTCTCTTAGGACAGCAATTATCAGAAAGAGATATTATTGTGGCATGCATTGATTACAG
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attggtgtgtttgtgtgtgtctagtatacgcaaac--acacattcactacataaaaattctgatcttactagttttgaagtatttgtattgtatttgtgcagTTACAAAGCATGGGGTTCTCTTTTAGGTCAACAGTTATCAGACAGAGATATCATTGTGGCATGCATAGATTACAG
upper sequence: AT1G26120.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv01s0011g02530.t01 (Vitis vinifera), 3'ss of exon 4
---gtgagtatgatacccaatggacactattttcattctaaagcatttgaggacgaggagaaagaactgcaaatatcttacagaatgtcttgtgttgatacagTTATAAGGCGTGGGGTTCTCTCTTAGGACAGCAATTATCAGAAAGAGATATTATTGTGGCATGCATTGATTACAG
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tttattaattctatcataacttgctaaaaaaattagttt---gcttcttgcgaccctaattacttattgccaaccaataatgagaagctttttgttgatgcagTTATAAAGCATGGGGTTCTCTTTTAGGGCAACAGTTATCAGAAAGAGACATCATAGTGGCATGCATAGATTACAGMapped 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|124866667|gb|EH951104.1|EH951104EST: GGACCAAAACCAGTTGTGGCGTTTGTGACTGGTGGAGCCTGGATTATTGG TTATAAGGCGTGGGGTTCTCTCTTAGG
genomic: GGACCAAAACCAGTTGTGGCGTTTGTGACTGGTGGAGCCTGGATTATTGGgtgagtatga ... gttgatacagTTATAAGGCGTGGGGTTCTCTCTTAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaggacgaggagaaagaactgcaaatatcttacagaatgtcttgtgttgatacagTTATAAGGCGTGGGGTTCTCTCTTAGGACAGCAATTATCAGAAAGAGATATTATTGTGGCATGCATTGATTACAG
aaatatctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtatgatacccaatggacactattttcattctaaagcatttgaggacgaggagaaagaactgcaaatatcttacagaatgtcttgtgttgatacagTTATAAGGCGTGGGGTTCTCTCTTAGGACAGCAATTATCAGAAAGAGATATTATTGTGGCATGCATTGATTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA