Sequence
atgc intronic sequence ATGC exonic sequencegtagtgtagcactatgtgtactatttgtttggttcttgtttttttctttcttcctttttatgttttttatattttttattctcttctatgtattaatcagcattttcctctgttgtatttttaagGAAACGCCTGAGCCTTTTCCTCTTCCGACTGAAGCTTCTATAGTGAAAGCTGCAGCAGGTTGGGCCCATTGTGCTTCTGTCACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G07160.1 (Glycine max), 3'ss of exon 2
gtagtgtagcactatgtgtactatttgtttggttcttgtttttttctttcttcctttttatgttttttatattttttattctcttctatgtattaatcagcattttcctctgttgtatttttaagGAAACGCCTGAGCCTTTTCCTCTTCCGACTGAAGCTTCTATAGTGAAAGCTGCAGCAGGTTGGGCCCATTGTGCTTCTGTCACAG
||| || | ||||||| || || | | |||| ||| |||| ||||| | |||| |||| | | | | || | | ||| |||| || | |||||||| || |||||||| |||||||| || ||||| ||||| || |||||||||||||| ||||| ||||||| | |||| ||||
gtaatgcataactatgtatagaatagaatga---cccagttttctctctctt-------------tttatctctttttttctttgcca---acaaactaacttttct---tgtttatttataaagGAAACTCCAGAGCCTTTCCCTCTTCCAACGGAAGCCTCTATTGTAAAAGCTGCAGCAGGATGGGCTCATTGTGTTGCTGTAACAG
upper sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G41810.1 (Glycine max), 3'ss of exon 2
gtagtgtagcactatgtgtactatttgtttggttcttgtttttttctttcttcctttttatgttttttatattttttattctcttctatgtattaatcagcattttcctctgttgtatttttaa-gGAAACGCCTGAGCCTTTTCCTCTTCCGACTGAAGCTTCTATAGTGAAAGCTGCAGCAGGTTGGGCCCATTGTGCTTCTGTCACAG
| | | || | | | | | | | | | || | |||| ||| || | | | |||| | | ||| ||| |||||| || |||||||| |||||||| || ||| | ||||| || |||||||||||||| ||||| ||||||| | |||| ||||
----------------------------------gtaatgcataactatgtataaaatagaatgacctgttgtctctctttttttctttgt--caacaaactaacttttctggtttgtttgtaaagGAAACTCCAGAGCCTTTCCCTCTTCCAACCGAAACCTCTATTGTAAAAGCTGCAGCAGGATGGGCTCATTGTGTTGCTGTAACAG
upper sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G03870.1 (Glycine max), 3'ss of exon 2
gtagtgtagcactatgtgtactatttgtttggttcttgtttttttctttcttcctttttatgttttttatattttttattctcttctatgtatt-aatcagcattttcctctgttgtatttttaagGAAACGCCTGAGCCTTTTCCTCTTCCGACTGAAGCTTCTATAGTGAAAGCTGCAGCAGGTTGGGCCCATTGTGCTTCTGTCACAG
| | | | | | |||| | | | |||| | | | | | | | | || | |||||| | || | || | |||||||| || |||||||| |||||||| ||||||| |||| || ||||||||||| || ||||| ||||||| |||||| || |
-----------------------------------gtaatgcatattgcataaccatttagagtggtactgttttctctcgtttctttttcactcaactaacattttataat-ttat-ttgtaaagGAAACTCCAGAGCCTTTCCCTCTTCCAACTGAAGTGACTATTGTTAAAGCTGCAGCTGGATGGGCACATTGTGTTTCTGTGACGG
upper sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G34470.1 (Glycine max), 3'ss of exon 2
gtagtgtagcactatgtgtactatttgtttggttcttgtttttttctttcttcctttttatgttttttatattttttattctcttctatgta-ttaatcagcattttcctctgttgtatttttaagGAAACGCCTGAGCCTTTTCCTCTTCCGACTGAAGCTTCTATAGTGAAAGCTGCAGCAGGTTGGGCCCATTGTGCTTCTGTCACAG
| || | || | | | ||| | | | | || | | | | | | | | | || | |||||| | || | || | ||||||| || |||||||| |||||||| ||||||| |||| || ||||||||||| || ||||| ||||||| |||||| ||||
--------------------------------gtaatgcatattgcataac-catttagaggggtactgctttctctctcatttctttttcactcaactaacattttataat-ttat-ttgtaaagGAAATTCCAGAGCCTTTCCCTCTTCCAACTGAAGTGACTATTGTAAAAGCTGCAGCTGGATGGGCACATTGTGTTTCTGTGACAGMapped 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|110385026|gb|EC949508.1|EC949508EST: GTTCAACGGATGATCTAGGTCAAAGCTATGTGACATCTGGAAAGCATGGG GAAACGCCTGAGCCTTTTCCTCTTCCGACTGAAGCTTCTATAGTGAAAGCT
genomic: GTTCAACGGATGATCTAGGTCAAAGCTATGTGACATCTGGAAAGCATGGGgtagtgtagc ... tatttttaagGAAACGCCTGAGCCTTTTCCTCTTCCGACTGAAGCTTCTATAGTGAAAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttttattctcttctatgtattaatcagcattttcctctgttgtatttttaagGAAACGCCTGAGCCTTTTCCTCTTCCGACTGAAGCTTCTATAGTGAAAGCTGCAGCAGGTTGGGCCCATTGTGCTTCTGTCACAG
tattaat putative branch site (score: 2)
ttttcctctgttgt putative PPT
ttctatgtattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtgtagcactatgtgtactatttgtttggttcttgtttttttctttcttcctttttatgttttttatattttttattctcttctatgtattaatcagcattttcctctgttgtatttttaagGAAACGCCTGAGCCTTTTCCTCTTCCGACTGAAGCTTCTATAGTGAAAGCTGCAGCAGGTTGGGCCCATTGTGCTTCTGTCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG