Sequence
atgc intronic sequence ATGC exonic sequenceCCTTCTTTTACTGTTAGGTTTGATTGGAGTTGGAACCTTTTTTGTGATTCGTCAAGTCCTTGTTCGTAGAGAACTTGACCTTTCTGCTAAAGAATTGCAAgtaagattctagtccttctttatttattattttcatttatccttttccaacctttttttgaatattgatgaatctttcttttagcatttatagttgatag...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0072g00860.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os10g32300.1 (Oryza sativa), 5'ss of exon 4
CCTTCTTTTACTGTTAGGTTTGATTGGAGTTGGAACCTTTTTTGTGATTCGTCAAGTCCTTGTTCGTAGAGAACTTGACCTTTCTGCTAAAGAATTGCAAgtaagattctagtccttctttatttattattttcatttatccttttccaacctttttttgaatattgatgaatctttcttttagcatttatagt-tgatag-
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TCTTCTCATACTACTTGGTCTTCTTGGAGCTGGTACATTTTTTGTCATTCGTCAAGTTCTTGTCCGTAGAGAGCTTGATCTTTCTGCCAAAGAGTTGCAGgtaaatgtgctg-ccaacactacttccaactgtagtaccaccaggtc-aattttatattaaaaacctatcagaataacagtgagctctgaatgtgcaatagt
upper sequence: Vv18s0072g00860.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GRMZM5G809292_T02 (Zea mays), 5'ss of exon 3
CCTTCTTTTACTGTTAGGTTTGATTGGAGTTGGAACCTTTTTTGTGATTCGTCAAGTCCTTGTTCGTAGAGAACTTGACCTTTCTGCTAAAGAATTGCAAgtaag--attctagtccttctttatttattattttcatttatccttttccaacctttttttgaatattgatgaatctttcttttagcatttatagttgatag--
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TCTGCTCATACTTATTGGACTGCTTGGAGCTGGTACATTTTTTGTTATCCGTCAGGTTCTTGTTCGTAGGGAGCTTGATCTTTCTGCCAAAGAGTTGCAAgtaagccactcgaacttttctttatggttagattacaagagatcaatctta----tattccaaacactactgaaatgactgattctgaagtgtaaaaaattgtt
upper sequence: Vv18s0072g00860.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA20G31640.1 (Glycine max), 5'ss of exon 2
CCTTCTTTTACTGTTAGGTTTGATTGGAGTTGGAACCTTTTTTGTGATTCGTCAAGTCCTTGTTCGTAGAGAACTTGACCTTTCTGCTAAAGAATTGCAAgtaagattctagtccttctttatttattatttt---catttatccttttccaacctttttttgaatattgatgaatctttcttttagcatttatagttgatag
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-----------------GTTTGCTAGGGACTGGAACTTTCTTTGTGATTCGTCAAGTTCTTGTCCGCAGAGAACTTGACCTATCTGCCAAAGAGTTGCAGgtaagagcctatgcatcttccttttggtcctttagatcttgagcaagatatatatggtactagcctcaaaatatattagaccctgaat-tttatgttagat--
upper sequence: Vv18s0072g00860.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA10G35950.2 (Glycine max), 5'ss of exon 4
CCTTCTTTTACTGTTAGGTTTGATTGGAGTTGGAACCTTTTTTGTGATTCGTCAAGTCCTTGTTCGTAGAGAACTTGACCTTTCTGCTAAAGAATTGCAAgtaagattctagtccttctttatttattattttcatttatccttttccaacctttttttgaatattgatgaatctttcttttagcatttatagttgatag
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CTTGATATTGCTATTGGGTTTGCTAGGGAGTGGGACTTTCTTTGTGATTCGCCAAGTTCTTGTCCGCAGAGAACTCGACCTATCTGCCAAAGAGTTGCAGgtaagagcctatgcatcttccttttggtcctttagatcttgagcaagacatatggtactaagtactaacctcaaaatatattataccctgaattttatgt
upper sequence: Vv18s0072g00860.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA10G35950.3 (Glycine max), 5'ss of exon 4
CCTTCTTTTACTGTTAGGTTTGATTGGAGTTGGAACCTTTTTTGTGATTCGTCAAGTCCTTGTTCGTAGAGAACTTGACCTTTCTGCTAAAGAATTGCAAgtaagattctagtccttctttatttattattttcatttatccttttccaacctttttttgaatattgatgaatctttcttttagcatttatagttgatag
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-------------------------GGAGT-GGGACTTTCTTTGTGATTCGCCAAGTTCTTGTCCGCAGAGAACTCGACCTATCTGCCAAAGAGTTGCAGgtaagagcctatgcatcttccttttggtcctttagatcttgagcaagacatatggtactaagtactaacctcaaaatatattataccctgaattttatgt
upper sequence: Vv18s0072g00860.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT1G22700.3 (Arabidopsis thaliana), 5'ss of exon 3
CCTTCTTTTACTGTTAGGTTTGATTGGAGTTGGAACCTTTTTTGTGATTCGTCAAGTCCTTGTTCGTAGAGAACTTGACCTTTCTGCTAAAGAATTGCAAgta--agattcta-gtccttctttatttattatttt----catttatccttttccaacctttttttgaatattgatgaatctttcttttagcatttatagttgatag
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CTTGCTGTTACTACTGGGGTTGCTTGGAGTTGGTACTTTCTATGTGATCCGTCAAGTACTTGTACGCAGAGAACTAGACCTCTCCGCTAAAGAATTGCAGgtaccagacaatgtgctctttgtggtagaaaacagtaggataagtaactgagatggaacgagtctagagtagagatgtaatattgatgtctctcgtatca-------Mapped 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|29784943|gb|CB341514.2|CB341514EST: GTCAAGTCCTTGTTCGTAGAGAACTTGACCTTTCTGCTAAAGAATTGCAA GAGCAAGTAAGAAGTGGTGATGCCAGTGCAACTGAACTGTTTGAACTTGGA
genomic: GTCAAGTCCTTGTTCGTAGAGAACTTGACCTTTCTGCTAAAGAATTGCAAgtaagattct ... ggaatttcagGAGCAAGTAAGAAGTGGTGATGCCAGTGCAACTGAACTGTTTGAACTTGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCTTCTTTTACTGTTAGGTTTGATTGGAGTTGGAACCTTTTTTGTGATTCGTCAAGTCCTTGTTCGTAGAGAACTTGACCTTTCTGCTAAAGAATTGCAAgtaagattctagtccttctttatttattattttcatttatccttttccaacctttttttgaatattgatgaatctttcttttagcatttatagttgatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttttcc