Sequence
atgc intronic sequence ATGC exonic sequencegtaagttttcctccacatttttcatccgttttgggtcttcttgatgtcgggcatttgggacggtattgggtgcttatttgaattttttttttttccctttaaattctaaaattcagGTTCGTGGTCTTGAATTTAATGCAATTGCACCAAACCTACTTGCTTCTGGAGCTGATGAAGGCGAGATTTGCATTTGGGATTTGGCAGCACCTGCAGAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0158g00140.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G01290.1 (Glycine max), 3'ss of exon 2
gtaagttttcctccacatttttcatccgttttgg-gtcttcttgatgtcgggcatttgggacggtattgggtgcttatttgaattttttttttttccctttaaattctaaaattcagGTTCGTGGTCTTGAATTTAATGCAATTGCACCAAACCTACTTGCTTCTGGAGCTGATGAAGGCGAGATTTGCATTTGGGATTTGGCAGCACCTGCAGAAC
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gtaagttttgctttgcttttataagccaacctgttgacttttaattgttctttgttcttgaccatatatattgtttgcttta--tttaaaatcctatcttatatttttatgtttcagGTTCGTGGTCTTGAGTTTAATGCCATTGCACCAAATCTTCTTGCATCTGGGGCTGAGGATGGTGAAATTTGCATATGGGATTTGGTCAATCCTTCAGAAC
upper sequence: Vv13s0158g00140.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G36050.2 (Glycine max), 3'ss of exon 2
gtaagttttcctccacatttttcatccgttttgggtcttcttgatgtcgggcatttgggacggtattgggtgcttatttgaattttttttttttccctttaaattctaaaattcagGTTCGTGGTCTTGAATTTAATGCAATTGCACCAAACCTACTTGCTTCTGGAGCTGATGAAGGCGAGATTTGCATTTGGGATTTGGCAGCACCTGCAGAAC
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gtaagttctgctttgcttttataagccaaactgttgagttttaat------tgttcttgaccatatatattgtttgctt-aatttaaaatcctatcttatatttttcttgtttcagGTTCGTGGTCTTGAGTTTAATGTCATTGCACCAAATCTTCTTGCATCTGGGGCTGAGGATGGTGAAATTTGCATATGGGATTTGGTCAATCCTTCAGAAC
upper sequence: Vv13s0158g00140.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G63460.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagttttcctccacatttttcatccgttttgggtcttcttgatgtcgggcatttgggacggtattgggtgcttatttgaattttttttttttccctttaaattctaaaattcagGTTCGTGGTCTTGAATTTAATGCAATTGCACCAAACCTACTTGCTTCTGGAGCTGATGAAGGCGAGATTTGCATTTGGGATTTGGCAGCACCTGCAGAAC
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gtgagttgtgtctc----tctgcatt-attttgttgcttaacgctgttttgtttttatcactcc-tcattttcatgtgtgcgtgcttctttttttctt----------------agGTTCGTGGTCTTGAGTTTAATGCTATCAGCTCAAATCTACTTGCTTCTGGGGCTGATGATGGTGAAATTTGCATTTGGGACTTATTAAAGCCTTCAGAGCMapped 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|34544619|gb|CF512851.1|CF512851EST: AGGCAAGTGAAAGTGCTCTTGTTGGACATCTCTCAAGGCATAAAGGGCCT GTTCGTGGTCTTGAATTTAATGCAATTGCACCAAACCTACTTGCTTCTGGA
genomic: AGGCAAGTGAAAGTGCTCTTGTTGGACATCTCTCAAGGCATAAAGGGCCTgtaagttttc ... taaaattcagGTTCGTGGTCTTGAATTTAATGCAATTGCACCAAACCTACTTGCTTCTGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtattgggtgcttatttgaattttttttttttccctttaaattctaaaattcagGTTCGTGGTCTTGAATTTAATGCAATTGCACCAAACCTACTTGCTTCTGGAGCTGATGAAGGCGAGATTTGCATTTGGGATTTGGCAGCACCTGCAGAAC
ttctaaa putative branch site (score: 2)
ttttttttttttccct CT-rich tract
ttatttgaattttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttttcctccacatttttcatccgttttgggtcttcttgatgtcgggcatttgggacggtattgggtgcttatttgaattttttttttttccctttaaattctaaaattcagGTTCGTGGTCTTGAATTTAATGCAATTGCACCAAACCTACTTGCTTCTGGAGCTGATGAAGGCGAGATTTGCATTTGGGATTTGGCAGCACCTGCAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG