Sequence
atgc intronic sequence ATGC exonic sequence...tagtattccgtctctcactgttctgtttccatgttcaatatgtttcttgttaagtaactgagtgtttgataataatttctcatgggcattttctttgaagGATCCATGGTGGAATCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: LOC_Os02g32570.2 (Oryza sativa), 3'ss of exon 11
-tagtattccgtctctcactgttctgtttccatgttcaatatgtttcttgttaagtaactgagtgtttgataataatt---tctcatgggcattttctttgaagGATCCATGGTGGAATCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAG
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aaaacattatacatttc----ttgtgctatagtgatctactaattttttgccgtgttagcatattcttagcatcatttgtgtatcgtaatcatgtttccttcagGATCCTTGGTGGAATCCTGCTGTTGAAGAACAAGCTATCATGCGGATCCATCGAATTGGTCAAACAAAGAGTGTTTCCATCAAAAGATTCATCGTCAAG
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GRMZM2G057504_T01 (Zea mays), 3'ss of exon 7
----tagtattccgtctctcactgttctgtttccatgttcaatatgtttcttgttaagtaactgagtgtttgataataatttctcatgggcattttctttgaagGATCCATGGTGGAATCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAG
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acagtaatatagtgta-ctgttagcttcttttttatgctagccat-tatctt-ttagctgccttccacttgtttgtgagtgtcttatgag-atgtttgccgaagGACCCTTGGTGGAATCCTGCTGTGGAAGAACAAGCTGTCATGCGCATCCATCGAATTGGTCAAACGAAGACTGTTTCTATCAGAAGATTCATCGTGAAG
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA17G05390.1 (Glycine max), 3'ss of exon 18
----------tagtattccgtctctcactgttctgtttccatgttcaatatgtttcttgttaagtaactgagtgtttgataataatttctcatgggcattttctttgaagGATCCATGGTGGAATCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAG
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tgtataaaatggatatatagtgacattatga-ctattgtcatttggaaagtatttgttttttagtaattatg-gattattgataatttttcac--------tttggacagGACCCATGGTGGAATCCTGCTGTTGAGGAACAAGCTGTTATGCGTATTCATCGTATTGGACAAACAAAGAAGGTTGCCATTAGACGGTTTATTGTGAAG
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA12G30540.1 (Glycine max), 3'ss of exon 19
tagtattccgtctctcactgttctgtttccatgttcaatatgtttcttgttaagtaactgagtgtttgataat----aatttctcatgggcattttctttgaa--gGATCCATGGTGGAATCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAG
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------ccaatccaatgggtatatagtgacatattattattgtcatttgtaaagtatttgtttttttagtaattatggattattgatgatttttcactttggacagGACCCATGGTGGAATCCTGCTGTTGAGGAACAAGCTGTTATGCGTATTCATCGTATTGGACAAACAAAGAAGGTTGCCATTAGACGGTTTATTGTGAAG
upper sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT5G22750.1 (Arabidopsis thaliana), 3'ss of exon 18
tagtattccgtctctcactgttctgtttccatgttcaatatgtttcttgttaagt---aactgagtgtttgataataatttctcatgggcattttctttgaagGATCCATGGTGGAATCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAG
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-gccaccttttgtttcaaaagcttgtgaatgagtactgcacaatacaaaataggttttaaagaagtttcagttgtaaagaaaaccaagttatgtcctat--agGATCCATGGTGGAACCCAGCGGTAGAGGAACAAGCTGTTATGCGTATTCATCGTATAGGGCAAACTAAGGAAGTCAAAATCAGAAGATTCATCGTTAAGMapped 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|37187658|gb|CF607011.1|CF607011EST: CTGGTGGAGTTGGAATAAACCTAACGGCTGCATCCAATGCCTTTGTTTTG GATCCATGGTGGAATCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCAT
genomic: CTGGTGGAGTTGGAATAAACCTAACGGCTGCATCCAATGCCTTTGTTTTGgtatgtactg ... ttctttgaagGATCCATGGTGGAATCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCAT
EST:
gi|30253459|gb|CB971010.1|CB971010EST: CTGGTGGAGTTGGAATAAACCTACCGGCTGCATCCAATGCCTTTGTTTTG GATCCATGGTGNTCTCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCAT
genomic: CTGGTGGAGTTGGAATAAACCTAACGGCTGCATCCAATGCCTTTGTTTTGgtatgtactg ... ttctttgaagGATCCATGGTGGAATCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgttaagtaactgagtgtttgataataatttctcatgggcattttctttgaagGATCCATGGTGGAATCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAG
cattttcttt CT-rich tract
tgtttgataataattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagtattccgtctctcactgttctgtttccatgttcaatatgtttcttgttaagtaactgagtgtttgataataatttctcatgggcattttctttgaagGATCCATGGTGGAATCCAGCTGTAGAGGAACAAGCTGTTATGCGGATTCATCGTATTGGACAAACAAAAAGGGTAATGATCAAGCGGTTCATTGTGAAG
- - - - - -ctctcac
- - - - - - - - - - - - - - ccatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgagtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgggc