Sequence
atgc intronic sequence ATGC exonic sequenceGAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAGgttcattttgttcttgtgttttgcattaagctatctaaagatatcatatataaatgcttatttcttctttctgggttaattatcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 5'ss of exon 12
GAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAGgttcattttgttcttgtgttttgcattaagctatctaaagatatcatatataaatgcttatttcttctttctgggtta-attatcag---------------
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GAATCCTCAAGTGGATCTGCAAGCGCAAGATCGTGCACATAGAATTGGTCAAAAGAAAGAAGTTCAAGTTTTTCGTTTCTGCACTGAGgttttatttaat-ttat-tttaagatttaaaaacactggtttagcactaagcaatatcttctatttatttatataacagaatatgcttcatattctatgcag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: 13113.m00246 (Oryza sativa), 5'ss of exon 12
GAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAGgttcattttgttcttgtgttttgcattaagctatctaaagatatcatatataaatgcttatttcttctttctggg---ttaattatcag
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GAATCCACAAGCTGATCTGCAAGCTCAAGACCGTGCACATAGGATAGGTCAGAAGAAAGAAGTTCAAGTTTTCCGATTTTGCACTGAGgtttgtc--aatcttttctttagaat---attacgtaacaatcttttgtattgatatctaagataggatgacgaaaacttaatt-tcag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: AC235535.1_FGT001 (Zea mays), 5'ss of exon 12
GAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAGgttcattttgttcttgtgttttgcattaagctatctaaagatatcatatataaatgcttatttcttctttctgggttaattatcag
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GAATCCACAAGCTGATCTGCAAGCTCAGGACCGTGCACATAGGATAGGTCAAAAGAAAGAAGTTCAAGTGTTCCGCTTTTGCACTGAGgtttgtt--gtttcta-gattaacagtaa-ccatagtgctaaattctatgttgatatcaatttggaag------------------
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GRMZM2G010085_T01 (Zea mays), 5'ss of exon 9
GAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAGgttcattttgttcttgtgttttgcattaagctatctaaagatatcatatataaatgcttatttcttctt-tctgggttaattatcag
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GAATCCCCAAGCTGATCTGCAAGCTCAGGACCGTGCACATAGAATAGGTCAAAAGAAAGAAGTTCAAGTGTTCCGCTTTTGCACTGAGgtttgtt--gtttctagattaataattactgtagtgccaaattttatacttctacctgtatggaagataatgcaaacaaaattacag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA07G38050.2 (Glycine max), 5'ss of exon 12
GAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAGgttca---ttttgttcttgtgttttgcattaagctatctaaagata-tcatatataaat-----gcttatttcttctttc-tgggttaattatcag----
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GAACCCTCAAGTTGACCTGCAAGCTCAGGATCGTGCTCATAGGATTGGTCAAAAGAAAGAAGTTCAAGTTTTCCGATTTTGCACTGAGgtttacaattttgtactttattattttgttattctgttcatcattagttatgcttctatctagaaatcactgatactagcactggacagttataagatgt
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA17G02640.1 (Glycine max), 5'ss of exon 12
GAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAGgttca---ttttgt-tcttgtgttttgc-attaagctatctaaagata-----tcatatataaatgcttatttcttctttctgggttaattatcag----
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GAACCCACAAGTTGACCTGCAAGCTCAGGATCGTGCTCATAGGATTGGTCAAAAGAAAGAAGTTCAAGTTTTCCGATTTTGCACTGAGgtttacaattttgtaccttattatttgttattctgttcatcatagttaggcttctatctagaaatcactaatactagcactggacacagttataagatgt
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA15G10370.1 (Glycine max), 5'ss of exon 12
GAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAGgttcattttgttcttgtgttttgcattaagctatctaaagat-atcatatataaatgcttatttcttctttctgggttaattatcag--------
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GAACCCACAAGTTGACTTGCAGGCTCAGGATCGTGCTCATAGGATTGGTCAAAAGAAAGAAGTTCAAGTTTTCCGATTTTGTACTGAGgtttgcaattttaaactttattttaatttccaattcattgttcactctgtgtgtgttagtatctcatctcgtcattgtaatttgtaatggtacag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 12
GAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAGgttc---attttgttcttgtgttttgcattaagctatctaaagatatcatatataaat-gcttatttcttctttctgggtt--aattat-cag
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GAACCCACAAGTTGACTTGCAGGCTCAGGATCGTGCTCATAGGATTGGTCAAAAGAAAGAAGTTCAAGTTTTCCGTTTTTGTACTGAGgtttgcaattttaaactttattttacttttcaattcattgttcactctgtgtgttagtagctcatctaatcattgtaatttgtaatggtacag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 5'ss of exon 12
GAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAGgttcattttgttcttgtg--ttttgcattaagctatcta--aagatatcatatataaatgcttatttcttctttctgggttaattatcag
|||||| ||||| || |||||||| || |||||||| ||| ||||||||||||| ||||||||||||||||||||||||||||| |||||| | | | ||| ||| |||| | | | | | | | ||| | | || || ||| |
GAACCCACAAGTCGACTTGCAAGCTCAGGATCGTGCCCATAGGATTGGTCAAAAAAAAGAAGTTCAAGTGTTTCGATTCTGCACTGAGgttggtctcctctccgtgaatttcaagttaaaacagccatgagaggtttaaaattaattatgtgttgtttgtttacag------------
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 5'ss of exon 12
GAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAGgttcattttgttcttgtgttt-tgcattaag--ctatctaaagatatcatatataaatgcttatttcttctttctgggttaattatcag
|||||| |||||||| |||||||| || |||||||| ||| ||||||||||||| ||||||||||||||||| || |||||||| |||||| | |||| | ||| | || | |||| | || ||| | | ||| | ||| | | | |
GAACCCTCAAGTTGACTTGCAAGCTCAGGATCGTGCACATAGGATTGGTCAAAAAAAAGAAGTTCAAGTGTTCCGGTTCTGCACCGAGgttactcttgtacccatgtgtatgaagtaagaatgacctggagaacttgaac-taattctgcattggtcttatgcag------------
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: EFJ06565 (Selaginella moellendorffii), 5'ss of exon 12
GAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAGgttcattttgttcttgtgttttgcat-taagctatctaaagatatcatatataaatgcttatttcttctttctgggttaattatcag
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GAATCCTCAAGTCGATTTGCAAGCGCAAGATCGAGCACATCGGATTGGACAGAAAAAAGAAGTTCAAGTTTTCCGATTTTGCACGCAGgtaaaaggatgacttgtgtgttatttctttgctgactcgttttctgtttctcag---------------------------------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|29781883|gb|CB346697.2|CB346697EST: ATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAG TATACCATCGAGGAAAAGGTGATCGAGAGAGCTTATAAAAAATTGGCACTC
genomic: ATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAGgttcattttg ... taattatcagTATACCATCGAGGAAAAGGTGATTGAGAGAGCTTATAAAAAATTGGCACTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCAAAAGAAAGAAGTTCAAGTGTTTCGATTCTGCACAGAGgttcattttgttcttgtgttttgcattaagctatctaaagatatcatatataaatgcttatttcttctttctgggttaattatcag
- - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT