Sequence
atgc intronic sequence ATGC exonic sequencegtaataaaaaataattaaattaaattaaattaaaattttaaaaaaacccataaaacaaatattcatttaaggtatcaccaagaatattctgtcttgttttaacaaataattccctttttttcttattggatgcagCATTGGAGCCAAAAAGGTAAAGGGTGAATGCACACTGTTTAGAGAATATTGCAAGGCAGGAAATGGAGAAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g03520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G43110.1 (Glycine max), 3'ss of exon 2
gtaataaaa---aataattaaattaaattaa-attaaaattttaaaaaa---acccataaaaca--aatattcatttaaggtatcaccaagaatattctgtcttgttttaacaaataattccctttttttcttattggat-gcagCATTGGAGCCAAAAAGGTAAAGGGTGAATGCACACTGTTTAGAGAATATTGCAAGGCAGGAAATGGAGAAGG
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gtaaacaaacctaatgatgacaataagtgattattattatatcagcaggcacatacatagtactctgttgtctttatatgata-caacaacaacgaatcccaatgatttgatgagtt-ttctttttgttatgggctgcattgcagCATCGGAGCCAAAAAGGTGAAAGCAGAATGCACTCTGTTTATGGAATATTGCAGGGCAAGAAATGGAGAAGG
upper sequence: Vv09s0002g03520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G02260.1 (Glycine max), 3'ss of exon 3
----------gtaataaaaaataattaaattaaattaa--attaaaattttaaaaaa---acccataaaacaa----atattcatttaaggtatcaccaagaatattctgtcttgttttaacaaataa--ttccctttttttcttattgga--tgcagCATTGGAGCCAAAAAGGTAAAGGGTGAATGCACACTGTTTAGAGAATATTGCAAGGCAGGAAATGGAGAAGG
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gtaaacaaaccaaataagttcaagttgcattgagtgaattattattatatcagcaggcacatgcatagtactctgttggctttatttgatacagcacaaacaacaacgaatctctaattatttgatgagttttctttttgttatggtttgcattgcagCATCGGAGCCAAAAAGGTGAAAGCAGAGTGCACTCTGTTCAGGGAATATTGCAGGGCAAGAAATGGAGAAGG
upper sequence: Vv09s0002g03520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G21510.1 (Glycine max), 3'ss of exon 3
------------------------------gtaataaaa--aataatta--aattaaattaaattaaaattttaaaaaaacccataaaacaaat-----attcatttaaggtatcaccaagaatattctgtcttgtttt------aacaaataattcc-----------------ctttttttcttattggatgcagCATTGGAGCCAAAAAGGTAAAGGGTGAATGCACACTGTTTAGAGAATATTGCAAGGCAGGAAATGGAGAAGG
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gtaaattaatatatattactccaatagaaaataataacaacagtaattactactattaatatattataattaaaattatactaataagtcgagtgaattattattttaaattatcatcaggtacatactgtgttggctttatcacaataaagaatcctaattatttaaattctttctttttttgtgatggattgcagCATAGGAGCCAAAAAGGTGAAAACAGAGTGTAATCTGTTCAGAGAATATTGCAGGGCAGGAAATGCAGAAGG
upper sequence: Vv09s0002g03520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G01840.1 (Glycine max), 3'ss of exon 3
--------------------------------gtaataaaaaataattaaatta--aattaaattaaaattttaaaaaaaccca--taaaacaaatattcatttaaggtatcaccaagaatattctgtcttgtttt------aacaaataattcc-------------ctttttttcttat--------tggat-gcagCATTGGAGCCAAAAAGGTAAAGGGTGAATGCACACTGTTTAGAGAATATTGCAAGGCAGGAAATGGAGAAGG
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gtaactatagaatagtccaaatgaaaatactaccaacaacaattactgttgttattaacttatttataattagtatactactaaattgagtgaaatattatttaaaagtatcatcaggtacatactgtgttggctttatcagaacaaagaatcctaattatttaaattctttctttcttgtgtgtgtgatggattgcagCATAGGAGCCAAAAAGGTGAAAGCAGAGTGCAATCTGTTCAGGGAATATTGCAGGACAGGAAATGCAGAAGGMapped 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|110428639|gb|EC995116.1|EC995116EST: TTTTCTAAGTTGGACAGCTACATGCACCAGTTCAAAGGAAGTGCTTCAAG CATTGGAGCCAAAAAGGTAAAGGGTGAATGCACACTGTTTAGAGAATATTG
genomic: TTTTCTAAGTTGGACAGCTACATGCACCAGTTCAAAGGAAGTGCTTCAAGgtaataaaaa ... ttggatgcagCATTGGAGCCAAAAAGGTAAAGGGTGAATGCACACTGTTTAGAGAATATTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaatattctgtcttgttttaacaaataattccctttttttcttattggatgcagCATTGGAGCCAAAAAGGTAAAGGGTGAATGCACACTGTTTAGAGAATATTGCAAGGCAGGAAATGGAGAAGG
ttttaac putative branch site (score: 2)
taattccctttttttc putative PPT
ttgttttaacaaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaataaaaaataattaaattaaattaaattaaaattttaaaaaaacccataaaacaaatattcatttaaggtatcaccaagaatattctgtcttgttttaacaaataattccctttttttcttattggatgcagCATTGGAGCCAAAAAGGTAAAGGGTGAATGCACACTGTTTAGAGAATATTGCAAGGCAGGAAATGGAGAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA