Sequence
atgc intronic sequence ATGC exonic sequence...gacttgccaatgtgttggatattaccttaatacttgttaaggaagaataatgggagttctatcatattttggaaagacttataatgcggaatttgtgcagGCATTTAATGGAAAGAAGTGGGAAAAGTTCAACAGTGAAAAAGTTGCTTCATTGGCATATGCGCGAATACAAGGCAAGGCAGCCCTTGTTACACACTTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0142g00100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA18G12730.1 (Glycine max), 3'ss of exon 10
-----------------------------------gacttgccaatgtgttggatattacctt--aatacttgttaaggaagaataatggga-gttct-----atcatattttggaaagacttataatgcggaatttgtgcagGCATTTAATGGAAAGAAGTGGGAAAAGTTCAACAGTGAAAAAGTTGCTTCATTGGCATATGCGCGAATACAAGGCAAGGCAGCCCTTGTTACACACTTCC
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gtttgaattctatatcttttcacgtctgaggtcttctgttactactacatttattgatagtttctggtaatttgcaagtattaaacttgtcctgatctggagaagtatgatgttaagaagtctatcatg-gaaatttctgtagGCCTTTAATGGGAAAAAGTGGGAGAAGTTCAACAGTGAAAAGGTTGCTTCACTGGCATATGCACGGATACAAGGAAAGGCTGCGCTTGTGATGCATTTCC
upper sequence: Vv12s0142g00100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA08G42230.1 (Glycine max), 3'ss of exon 9
-----gacttgccaatgtgttggatattaccttaatacttgttaaggaagaataatg-ggagttctatcatattttggaaagacttataatgcggaatttgtgcagGCATTTAATGGAAAGAAGTGGGAAAAGTTCAACAGTGAAAAAGTTGCTTCATTGGCATATGCGCGAATACAAGGCAAGGCAGCCCTTGTTACACACTTCC
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aaagtattttattgatagtttc--tgttaatttgcaagtattaaacttgtcctgatctggagaagtataatgtt---gagaagtctatcatg-gaaatttacgtagGCCTTTAATGGGAAAAAGTGGGAGAAGTTCAACAGTGAAAAGGTTGCTTCACTGGCATATGCACGGATACAAGGAAAGGCTGCGCTTGTGATGCATTTCC
upper sequence: Vv12s0142g00100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ28200 (Selaginella moellendorffii), 3'ss of exon 10
gacttgccaatgtgttggatattaccttaatacttgttaaggaagaataatgggagttctatcatattttggaaagacttataatgcggaatttgtg-----cagGCATTTAATGGAAAGAAGTGGGAAAAGTTCAACAGTGAAAAAGTTGCTTCATTGGCATATGCGCGAATACAAGGCAAGGCAGCCCTTGTTACACACTTCC
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--------------------------------------------gttcgatcaattctctcgctcctctggttgtaatccttgttggtggctctgtgactttcagAGTTTTAACGGCAAGAAGTGGGAGAAGTTCAACAGCGAAAAGGTTGCTTCTCTCGCCTACGCACGGATCCAGGGCAAGGCCGCGCTGGTCGCACACTTCC
upper sequence: Vv12s0142g00100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ28199 (Selaginella moellendorffii), 3'ss of exon 12
gacttgccaatgtgttggatattaccttaatacttgttaaggaagaataatgggagttctatcatattttggaaagacttataatgcggaatttgtgcagGCATTTAATGGAAAGAAGTGGGAAAAGTTCAACAGTGAAAAAGTTGCTTCATTGGCATATGCGCGAATACAAGGCAAGGCAGCCCTTGTTACACACTTCC
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-------------------------------------------------gtttgacaccgttgttttcttcgtgcgcattctcattctcgatct-tacagACCTTCAATGGAAAGAAGTGGGAGAAGTTCAACAGCGAGAAGGTTGCTTCTCTGGCTTACGCTCGAATACAAGGCAAGGTTGCCCTCGTCGCACATTTCC
upper sequence: Vv12s0142g00100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ29693 (Selaginella moellendorffii), 3'ss of exon 10
gacttgccaatgtgttggatattaccttaatacttgttaaggaagaataatgggagttctatcatattttggaaagacttataatgcggaatttgtgcagGCATTTAATGGAAAGAAGTGGGAAAAGTTCAACAGTGAAAAAGTTGCTTCATTGGCATATGCGCGAATACAAGGCAAGGCAGCCCTTGTTACACACTTCC
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-------------------------------------------------gtttgacaccgttgttttcttcgtgcgcattctcattctcgatct-tacagACCTTCAATGGAAAGAAGTGGGAGAAATTCAACAGCGAGAAGGTTGCTTCTCTGGCTTACGCTCGAATACAAGGCAAGGTTGCCCTCGTCGCACATTTCC
upper sequence: Vv12s0142g00100.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ29695 (Selaginella moellendorffii), 3'ss of exon 8
gacttgccaatgtgttggatattaccttaatacttgttaaggaagaataatgggagttctatcatattttggaaagacttataatgcggaatttg---tgcagGCATTTAATGGAAAGAAGTGGGAAAAGTTCAACAGTGAAAAAGTTGCTTCATTGGCATATGCGCGAATACAAGGCAAGGCAGCCCTTGTTACACACTTCC
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----------------------------------------gttcgatcaattct--ctcgctcgtctggttgtaatccttgttgttcgctctgtgactttcagAGTTTTAACGGCAAGAAGTGGGAGAAGTTCAACAGCGAAAAGGTTGCTTCTCTCGCCTACGCACGGATCCAAGGCAAGGCCGCGCTGGTCGCACACTTCCMapped 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|351016374|gb|FQ446234.1|FQ446234EST: ATGCCTTTATCAACATGGTGTCTCCTTCGCACATTATCCCCTTTTATGAG GCATTTAATGGAAAGAAGTGGGAAAAGTTCAACAGTGAAAAAGTTGCTTCA
genomic: ATGCCTTTATCAACATGGTGTCTCCTTCGCACATTATCCCCTTTTATGAGgttctatttt ... atttgtgcagGCATTTAATGGAAAGAAGTGGGAAAAGTTCAACAGTGAAAAAGTTGCTTCA
EST:
gi|351017816|gb|FQ436169.1|FQ436169EST: ATGCCTTTATCAACATGGTGTCTCCTTCGCACATTATCCCCTTTTATGAG GCATTTAATGGAAAGAAGTGGGAAAAGTTCAACAGTGAAAAAGTTGCTTCA
genomic: ATGCCTTTATCAACATGGTGTCTCCTTCGCACATTATCCCCTTTTATGAGgttctatttt ... atttgtgcagGCATTTAATGGAAAGAAGTGGGAAAAGTTCAACAGTGAAAAAGTTGCTTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataatgggagttctatcatattttggaaagacttataatgcggaatttgtgcagGCATTTAATGGAAAGAAGTGGGAAAAGTTCAACAGTGAAAAAGTTGCTTCATTGGCATATGCGCGAATACAAGGCAAGGCAGCCCTTGTTACACACTTCC
ttctatcatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gacttgccaatgtgttggatattaccttaatacttgttaaggaagaataatgggagttctatcatattttggaaagacttataatgcggaatttgtgcagGCATTTAATGGAAAGAAGTGGGAAAAGTTCAACAGTGAAAAAGTTGCTTCATTGGCATATGCGCGAATACAAGGCAAGGCAGCCCTTGTTACACACTTCC
- cttgcca
- - - - - -gtgttgg
- - - - - - - - - - - - - - - - - - - - ggaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaaaga