Sequence
atgc intronic sequence ATGC exonic sequencegtgagtattctatacattaagcaactataatccttgtggttctttctttttcacaaatgaagtgcatttttttcttgcccttttcaaataaatgcctctctctgattacttgtacttgctagttaaactagttggaaaaggtttccacttgtgacaatttgatgttgtttcatgtagAGAATGCTAGGGTGATGGTCCTTGCTGCTACTAATCGTCCATCAGAACTTGATGAAGCAATTCTTCGACGTCTTCCTCAGGCCTTTGAGATTGGGATACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0098g01260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G26420.1 (Glycine max), 3'ss of exon 3
gtgagtattctatacattaagcaactataatccttgtggttctttctttttcacaaatgaagtgcatttttttcttgcccttttcaaataaatgcctctctctgattacttgtacttgctagttaaactagttggaaaaggtttccacttgtgacaatttgatgttgtttcatgtagAGAATGCTAGGGTGATGGTCCTTGCTGCTACTAATCGTCCATCAGAACTTGATGAAGCAATTCTTCGACGTCTTCCTCAGGCCTTTGAGATTGGGATACC
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gtaagttttaaacgtgttatatacttct----cttctgaggcataattattta-gaatatgctgcaagataccgtgaattgatgcagctc--tgtttagcatt-attctctgtacttattagtcaaa--agtttttaattgtgatgacttat---aatttactgtg----tgtgtagAGAATGCTCAAGTTATGGTCCTTGCTGCAACTAATCGTCCTTCAGAACTTGATGAAGCAATACTTCGACGTCTTCCTCAAGCATTTGAAATTGGTATTCC
upper sequence: Vv16s0098g01260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G41040.1 (Glycine max), 3'ss of exon 3
gtgagtattctatacattaagcaactataatccttgtggttctttctttttcacaaatgaagtgcatttttttcttgcccttttcaaataaatgcctctctctgattacttgtacttgctagttaaacta-gttggaaaaggttt-ccacttgtgacaatttgatgt---tgttt-catgtagAGAATGCTAGGGTGATGGTCCTTGCTGCTACTAATCGTCCATCAGAACTTGATGAAGCAATTCTTCGACGTCTTCCTCAGGCCTTTGAGATTGGGATACC
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gtaagt-ttaaaccagttatcatattattttattt-cattgcataaatattca-aaataagttgcaaataagataatgacaattttgatagaga--tttggttggtaacataatgttttcaatttatttatatttgagtagatttgttgattggggtgacttattgtgtgtgtttgtgtgtagAGAATGCTCAAGTTATGGTCCTTGCAGCAACTAATCGTCCTTCAGAACTTGATGAAGCAATTCTTCGGCGTCTTCCTCAAGCCTTTGAAATTGGAGTTCC
upper sequence: Vv16s0098g01260.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G13800.1 (Glycine max), 3'ss of exon 3
gtgagtattctatacattaagcaactataatccttgtggttctttctt---tttcacaaatgaagtgcatttttttcttgcccttttcaaataaatgcctctctctgattacttgtacttgctagttaaacta-gttggaaaaggttt-ccacttgtgacaatttgatgttgtttcatgtagAGAATGCTAGGGTGATGGTCCTTGCTGCTACTAATCGTCCATCAGAACTTGATGAAGCAATTCTTCGACGTCTTCCTCAGGCCTTTGAGATTGGGATACC
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-----------gtaagtttaacagttatcatattttattttgttgcataaatattgaaaataagttgcaaataagataatgacaattttgatagaga--tttagttggtaacataatgttctcaatttatttatatttgagtagatttgttgattggggtgacttattgtg----tgtgtagAGAATGCTCAAGTTATGGTTCTTGCAGCAACTAATCGTCCTTCAGAACTTGATGAAGCAATACTTCGGCGTCTTCCTCAAGCCTTTGAAATTGGAATTCCMapped 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|349814709|gb|FQ409932.1|FQ409932EST: AAACATGAAAACTGAGTTCATGGCTTTATGGGATGGTTTTACCACTGATC AGAATGCTAGGGTGATGGTCCTTGCTGCTACTAATCGTCCATCAGAACTTG
genomic: AAACATGAAAACTGAGTTCATGGCTTTATGGGATGGTTTTACCACTGATCgtgagtattc ... tttcatgtagAGAATGCTAGGGTGATGGTCCTTGCTGCTACTAATCGTCCATCAGAACTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaactagttggaaaaggtttccacttgtgacaatttgatgttgtttcatgtagAGAATGCTAGGGTGATGGTCCTTGCTGCTACTAATCGTCCATCAGAACTTGATGAAGCAATTCTTCGACGTCTTCCTCAGGCCTTTGAGATTGGGATACC
atttgat putative branch site (score: 5)
ttgtttc CT-rich tract
aatttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtattctatacattaagcaactataatccttgtggttctttctttttcacaaatgaagtgcatttttttcttgcccttttcaaataaatgcctctctctgattacttgtacttgctagttaaactagttggaaaaggtttccacttgtgacaatttgatgttgtttcatgtagAGAATGCTAGGGTGATGGTCCTTGCTGCTACTAATCGTCCATCAGAACTTGATGAAGCAATTCTTCGACGTCTTCCTCAGGCCTTTGAGATTGGGATACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA