Sequence
atgc intronic sequence ATGC exonic sequencegtaaatattttttcattcccttaaatttggaatcctttttgcttgttagattctatatgcattcctctatttatgtactagaattttgcagGATGGTAATCCTAGACTCTCTTGCTTTGGCCTGATGAAAAATAGTAGGGATGGAAAAAGTTATAGTACGAATCTGGCGTTTACTCCTCCTGAGTATTTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os04g58750.2 (Oryza sativa), 3'ss of exon 5
gtaaatattttttcattcccttaaatttggaatcctttttgcttgttagattctatatgcattcctctatttatgtactagaattttgcagGATGGTAATCCTAGACTCTCTTGCTTTGGCCTGATGAAAAATAGTAGGGATGGAAAAAGTTATAGTACGAATCTGGCGTTTACTCCTCCTGAGTATTTGA
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gtgagtatcatatagattgttt----ttgtaa-cgtgatcatctgtgtg-ttttgta-acatttctatgtt-gtttac----atggcacagGACTGTAACCCTAGGCTTTCATGTTTTGGCCTCATGAAGAACAGTCGAGATGGTAAAAGCTACAGTACCAATCTGGCGTTTACTCCTCCAGAGTACATGA
upper sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G01300.2 (Glycine max), 3'ss of exon 5
gtaaatattttttcattcccttaaatttggaatcctttttgcttgttagattctatatgcattcctctatttatgtactagaattttgcagGATGGTAATCCTAGACTCTCTTGCTTTGGCCTGATGAAAAATAGTAGGGATGGAAAAAGTTATAGTACGAATCTGGCGTTTACTCCTCCTGAGTATTTGA
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gtaagtttttgtgtatcccctt-------------tttatacatgtcc--ctataattagattaataaaaaaatgtgttagaattttgcagGATGGTAATCCTAGGCTTTCGAGTTTTGGTCTTATGAAAAATAGCAGGGATGGGAAAAGTTATAGCACAAATTTGGCATTTACCCCTCCAGAGTATCTCA
upper sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G07850.2 (Glycine max), 3'ss of exon 5
gtaaatattttttcattcccttaaatttggaatcctttttgcttgttagattctatatgcattcctctatttatgtactagaattttgcagGATGGTAATCCTAGACTCTCTTGCTTTGGCCTGATGAAAAATAGTAGGGATGGAAAAAGTTATAGTACGAATCTGGCGTTTACTCCTCCTGAGTATTTGA
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gtaagtttttgtgtatcccctt----tttatacatgtcccaataattagatta-ataaaaa-----------atgtgttagaattttgcagGATGGTAATCCTAGGCTTTCAAGTTTTGGTCTTATGAAAAATAGCAGGGATGGGAAAAGTTATAGCACAAATTTGGCATTTACCCCTCCAGAGTATCTTA
upper sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G00710.1 (Arabidopsis thaliana), 3'ss of exon 5
-------------gtaaatattttttcattcccttaaatttggaatcctttttgcttgttagattctatatgcattcctctatttatgtactagaattttgca-gGATGGTAATCCTAGACTCTCTTGCTTTGGCCTGATGAAAAATAGTAGGGATGGAAAAAGTTATAGTACGAATCTGGCGTTTACTCCTCCTGAGTATTTGA
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gtatttattagttatatataagcagtttttcctctttcttcgaaacctgtctatgtttctatgctattccttcattctctgacgccttaaggggcttttaataagGAATGCAATCCAAGACTATCTACTTTTGGCTTGATGAAGAATAGTCGGGATGGAAAAAGTTACAGCACTAATCTTGCTTTCACCCCTCCTGAATATCTAC
upper sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G01740.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaaatattttttcattcccttaaatttggaatcctttttgcttgttagattctatatgcattcctctatttatgtactagaattttgcagGATGGTAATCCTAGACTCTCTTGCTTTGGCCTGATGAAAAATAGTAGGGATGGAAAAAGTTATAGTACGAATCTGGCGTTTACTCCTCCTGAGTATTTGA
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gtaattacttaaacgcaactcttgtccgggaaaccatgtt--ttgttttatgctatattcccccactaatgcgtttatgaatctttataagGAATGTAATCCAAGACTTTCAACATTTGGGTTAATGAAGAATAGTCGGGATGGGAAAAGTTATAGCACAAATCTTGCTTTTACCCCACCTGAGTATCTAC
upper sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S122_66V6.1 (Physcomitrella patens), 3'ss of exon 4
---------------------------------------------------------------------------------------------------------gtaaatattttttcattcccttaaatttggaatcctttttgcttgttagattctatatgcattcctctatttatgtactagaattttg-cagGATGGTAATCCTAGACTCTCTTGCTTTGGCCTGATGAAAAATAGTAGGGATGGAAAAAGTTATAGTACGAATCTGGCGTTTACTCCTCCTGAGTATTTGA
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gtattgctcttctctgtagcagttttgaactaaaacttggtatgtcccttcccgttcctatcaagtctcgacaatcctgctatacagaacacccacatcaaatacgctaatcacttttttttacggaaaataaggttttaaagtagacctatctaatctgtagattataaattgatggtctcccacgcctttgtcagGAAGGAGATCCGCGCCTCTCTTGTTTTGGCCTCATGAAGAACAGTCGCGATGGAAAAAGCTATAGTACCAATCTGGCCTACACTCCCCCTGAATACTTAAMapped 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|110400308|gb|EC966866.1|EC966866EST: GGCGTGCCCTTTACCATGACCTTAATGCTTATAGAATTTTGTTCGATGAG GATGGTAATCCTAGACTCTCTTGCTTTGGCCTGATGAAAAATAGTAGGGAT
genomic: GGCGTGCCCTTTACCATGACCTTAATGCTTATAGAATTTTGTTCGATGAGgtaaatattt ... aattttgcagGATGGTAATCCTAGACTCTCTTGCTTTGGCCTGATGAAAAATAGTAGGGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgcttgttagattctatatgcattcctctatttatgtactagaattttgcagGATGGTAATCCTAGACTCTCTTGCTTTGGCCTGATGAAAAATAGTAGGGATGGAAAAAGTTATAGTACGAATCTGGCGTTTACTCCTCCTGAGTATTTGA
tatttatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatattttttcattcccttaaatttggaatcctttttgcttgttagattctatatgcattcctctatttatgtactagaattttgcagGATGGTAATCCTAGACTCTCTTGCTTTGGCCTGATGAAAAATAGTAGGGATGGAAAAAGTTATAGTACGAATCTGGCGTTTACTCCTCCTGAGTATTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC