Sequence
atgc intronic sequence ATGC exonic sequence...taagatcaaacatcatctgtttcaatatgttttcttgattcagatatgaatctacttttattactttagtttatttaacctttttctttgagctttgcagGTCCGACTCATTACCGACAAAGAGACTAGTAAACCTAGAGGTTATGCTTTCATTGAATATATGCATACACGGGATATGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g01580.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os10g02630.1 (Oryza sativa), 3'ss of exon 6
taagatcaaacatcatctgtttcaatatgttttcttgattcagatatgaatctacttttattactttagtttatttaacctttttctttgagcttt--gcagGTCCGACTCATTACCGACAAAGAGACTAGTAAACCTAGAGGTTATGCTTTCATTGAATATATGCATACACGGGATATGAAAG
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--aaacaaacaaacaattgtaatgacaaccggcaacattcttaagttcagtgcatatttctttttggaaagaccttaatgggtacatttgagctttttgcagGTACGGCTTGTGACCGACAAGGAAACAAATAAACCTAGAGGATATGCATTCATCGAGTATATGCACACCCGGGACATGAAAA
upper sequence: Vv04s0023g01580.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G113592_T02 (Zea mays), 3'ss of exon 6
taagatcaaacatcatctgtttcaatatgttttcttgattcagatatgaatctacttttattactttagtttatttaacctttttctttgagctttgcagGTCCGACTCATTACCGACAAAGAGACTAGTAAACCTAGAGGTTATGCTTTCATTGAATATATGCATACACGGGATATGAAAG
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aaagaacaaacacaattacaactaaaaatataacatattcttaacttcaggggaactttcttattgaatattgtttcattactaaatttgatctttccagGTTCGTCTTGTAACTGAGAAAGATACAAGTAAACCTAGAGGATATGCATTCATTGAGTATGTGCACACACGAGACATGAAAA
upper sequence: Vv04s0023g01580.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G113592_T01 (Zea mays), 3'ss of exon 6
----------------------------------------------------------------taagatcaaacatcatctgtttcaatatgttttcttgattcagatatgaatctacttttattactttagtttatttaacctttttctttgagctttgcagGTCCGACTCATTACCGACAAAGAGACTAGTAAACCTAGAGGTTATGCTTTCATTGAATATATGCATACACGGGATATGAAAG
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gttagcacggctgttttaggctttatgcctgtctgtcgtgcagcataaaatatgctaaaaattaaaagaacaaacacaattacaactaaaaatataacatattcttaacttcaggggaactttcttattgaatattgtttcattactaaatttgatctttccagGTTCGTCTTGTAACTGAGAAAGATACAAGTAAACCTAGAGGATATGCATTCATTGAGTATGTGCACACACGAGACATGAAAAMapped 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|56409078|gb|CX017330.1|CX017330EST: CTGAGAGCAGAATCAAAAGGGAGTTTGAGGCTTATGGGCCAATCAAGCGG GTCCGACTCATTACCGACAAAGAGACTAGTAAACCTAGAGGTTATGCTTTC
genomic: CTGAGAGCAGAATCAAAAGGGAGTTTGAGGCTTATGGGCCAATCAAGCGGgtaggtactt ... agctttgcagGTCCGACTCATTACCGACAAAGAGACTAGTAAACCTAGAGGTTATGCTTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgaatctacttttattactttagtttatttaacctttttctttgagctttgcagGTCCGACTCATTACCGACAAAGAGACTAGTAAACCTAGAGGTTATGCTTTCATTGAATATATGCATACACGGGATATGAAAG
atttaac putative branch site (score: 3)
ttttattactttagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taagatcaaacatcatctgtttcaatatgttttcttgattcagatatgaatctacttttattactttagtttatttaacctttttctttgagctttgcagGTCCGACTCATTACCGACAAAGAGACTAGTAAACCTAGAGGTTATGCTTTCATTGAATATATGCATACACGGGATATGAAAG
- - - caaacat
- - - - - - - - ctgtttc