Sequence
atgc intronic sequence ATGC exonic sequencegtaggtcctggaaattctagttttttgacgaatttttttgctgtaaatgcgaccttgtactgaatcgagagctttgggttggaatgcagGGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os05g36960.1 (Oryza sativa), 3'ss of exon 3
gtaggtcctggaaattctagttttttgacgaatttttttgctgtaaatgcgaccttgtactgaatcgagagctttgggttgg-aatgcagGGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT
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------------gtttgtggattaggaacttactatatc-tagcttatctggt-ttatacttatttagttgacatgggtcagtaatgcagGGTTGCTATGTCTGCATTGTCACGGGCTATTGTGAAGGTGGAGATAT
upper sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G137118_T02 (Zea mays), 3'ss of exon 4
gtaggtcctggaaattctagttttttgacgaatttttttgctgtaaatgcgaccttgtactgaatcgagagctttgggttggaatgcagGGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT
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-----------gttttgtagttcaggaacttgttcttaccttgtttcttctgt-ttgaacttatttagttgacaaggtgagttatgcagGGTTGTTATGTCTGCATTGTCACGGGCTATTGTGAAGGTGGAGACAT
upper sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G18340.1 (Glycine max), 3'ss of exon 3
-------------gtaggtcctggaaattctagtt----ttttgacgaatttttttgctgtaaatgcgaccttgta------ctgaatcgagagc-tttgggttggaatgcagGGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT
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gtgagagaccctttaagtttttgtgtaatgtaatcatagtcttaatagttactacagtattgaactctctgttgtaaactatttctgctaagcacattctacttctgttgcagGGTTGCTATGTCTGCATTGTCACTGGATACTGTGAAGGTGGAGACAT
upper sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G31330.1 (Glycine max), 3'ss of exon 3
-------------------------------------gta---ggtcctggaaattctagttttttgacgaatttttttgctgtaaatgcgaccttgtactgaatcgagagctttgggttggaatgcagGGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT
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gttagagaaagcacaccgtttcaattgttatattgcagtatgcagtaatgtactttctgctgtaaactggagtttgttggattgtaacgtttttctttttggctgtgtatgtttttggttgtattgtagGGTTGCTATGTTTGCATTGTTACTGGATACTGTGAAGGTGGAGACAT
upper sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G09910.1 (Glycine max), 3'ss of exon 3
---------------------------------------------------------------gtaggtcctggaaattctagttttttgacgaatttttttgctgtaaatg-cgaccttgtactgaatcg---agagctttgggttggaatgcagGGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT
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gtgaagacccttaaaatttttgtataatgtaatcatagacttagtttctttcagttaattgttaatagttacagtattgcaatctctgttgtgaactagaagtgtgagaataatgactgtttacttttctgctaagcacattctactgt--tgcagGGTTGCTATGTCTGCATTGTCACCGGATACTGTGAAGGTGGAGACAT
upper sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G38980.1 (Glycine max), 3'ss of exon 3
-------------------------------------gta---ggtcctggaaattctagttt----tttgacgaatttttttgctgtaaatgcgaccttgtactgaatcgaga-gctttgggttggaatgcagGGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT
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gtgagccaaagcattgcgtttcgattgttattttgcagtatgcagtgttgtacgttctcctgtaaacttgaattagttgtattgtaatggttttatttatttattacttaagtatgtttttggttgtattgtagGGTTGTTATGTTTGCATTGTTACTGGATACTGTGAAGGTGGAGACAT
upper sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G44200.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaggtcctggaaattctagttttttgacgaatttttttgctgtaaatgcgacctt-gtactgaatcgagagctttgggttgga--atgcagGGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT
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gtaagttttacatcactttgatttttatgga-----tttaaagtagatttggttaaaggattttgataggagcta-gatttgaaaaatgcagGGTTGCTATGTTTGTATTGTCACTGGATACTGTGAAGGAGGAGACAT
upper sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ32716 (Selaginella moellendorffii), 3'ss of exon 3
gtaggtcctggaaattctagttttttgacgaatttttttgctgtaaatgcgaccttgtactgaatcgagagctttgggttggaatgcagGGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT
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---------------------------gtgagtgttgctctt--tgatctgttcagcttatgga-ctataact---ggatgtaa--cagGGATGCTATGTTTGCATCGTTACTGGATATTGTGAAGGGGGTGATAT
upper sequence: Vv06s0009g00690.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ20709 (Selaginella moellendorffii), 3'ss of exon 3
gtaggtcctggaaattctagttttttgacgaatttttttgctgtaaatgcgaccttgtactgaatcgagagctttgggttggaatgcagGGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT
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---------------------------gtgagtgttgctctt--tgatctgttcagcttatgga-ctataact---ggatgtaa--cagGGATGCTATGTTTGCATCGTTACTGGATATTGTGAAGGGG-------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|71862067|gb|DT011122.1|DT011122EST: GAATCCAACACCCTTACATTGTTGAATTTAAGGAAGCATGGGTAGAGAAG GGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT
genomic: GAATCCAACACCCTTACATTGTTGAATTTAAGGAAGCATGGGTAGAGAAGgtaggtcctg ... tggaatgcagGGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttgctgtaaatgcgaccttgtactgaatcgagagctttgggttggaatgcagGGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT
tgtaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtcctggaaattctagttttttgacgaatttttttgctgtaaatgcgaccttgtactgaatcgagagctttgggttggaatgcagGGTTGCTATGTTTGCATTGTCACTGGATATTGTGAAGGAGGAGACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA