Sequence
atgc intronic sequence ATGC exonic sequenceCCGGAAGTGAGAAATTTGTGTTCTTACTGTCAACTAGAGCTGGAGGTCTTGGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTGgtgagcatttctccatttttttttctttttcttttagaatgctagggaattgttatattatttaccaatctggttgatctctttattgcaccgtag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 5'ss of exon 11
CCGGAAGTGAGAAATTTGTGTTCTTACTGTCAACTAGAGCTGGAGGTCTTGGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTGgtgagcatttctccatttttttttctttttc-ttttagaatgctagggaattgttatattatttaccaatctggttgatctctttattgcaccgtag
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CAGGGAGTGAAAAATTTGTTTTCTTGCTTTCGACTAGGGCAGGTGGTCTTGGGATAAATCTTGCTACTGCTGATGTTGTTATTCTTTATGACAGTGACTGgtatgtccttttcaaatcgtaattttttctcattctacaat--ttgtgaa--gttaaaggttatggttatttggtttcacag---------------
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: 13113.m00246 (Oryza sativa), 5'ss of exon 11
CCGGAAGTGAGAAATTTGTGTTCTTACTGTCAACTAGAGCTGGAGGTCTTGGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTGgtgagcatttctccatttttttttctttttcttttagaatgctagggaattgttatattatttaccaatctggttgatctctttattgcaccgtag
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CAGGCAGTGAAAAGTTTGTTTTTTTGCTTTCAACCAGGGCTGGTGGCCTTGGCATCAACCTTGCTACTGCTGATGTTGTGGTTCTTTATGATAGTGATTGgtatgctgttatgtgcaaattgttttcttctgaacccatgaatatgtatgttgaatatttagtgttaatgtg-ttgatgtcttcag----------
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GRMZM2G010085_T01 (Zea mays), 5'ss of exon 8
CCGGAAGTGAGAAATTTGTGTTCTTACTGTCAACTAGAGCTGGAGGTCTTGGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTGgtgagc-atttctccatttttttttctttttcttttagaatgctagggaattgttatattatttacca-atctggttgatctctttattgcaccgtag
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CAGGAAGTGAGAAGTTTGTTTTCTTACTTTCAACTAGGGCAGGTGGCCTTGGTATCAACTTGGCCACTGCTGATGTTGTGGTTCTCTATGACAGCGATTGgtatgcgactttgttatgctaaatttagttttgttgcttataccct--aagcatgaagccatgaaccttatgttcctagtacttctgtgcctccag--
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AC235535.1_FGT001 (Zea mays), 5'ss of exon 11
CCGGAAGTGAGAAATTTGTGTTCTTACTGTCAACTAGAGCTGGAGGTCTTGGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTGgtgagc-atttctccatttttttttctttttcttttagaatgctagggaattgttatattatttaccaatctggttgatctctttattgcaccgtag
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CAGGAAGTGAAAAGTTTGTTTTCTTACTTTCAACTAGGGCAGGTGGCCTTGGTATCAACTTGGCCACTGCTGATGTTGTGGTTCTTTATGACAGCGATTGgtatgagactatgctaaacttgattctgttgctt-----accctaag-aatgaatctaatgcct--ctgttatttctgtgcctccag----------
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 11
CCGGAAGTGAGAAATTTGTGTTCTTACTGTCAACTAGAGCTGGAGGTCTTGGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTGgtgagcatttctccatttttttttctttttcttttagaatgctagggaattgttatattatttaccaatctggttgatctctttattgcaccgtag
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CAGGAAGTGAGAAATTTGTCTTCTTGTTATCAACTCGTGCTGGAGGTCTTGGTATTAATCTTGCTACTGCTGATGTTGTCATTCTGTACGATAGTGACTGgtcagtatttctagtagttttgaacacagccatgttatttatatctgtacc--caaattattttgttga-tggttggtgcttttacaacag-----
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA15G10370.1 (Glycine max), 5'ss of exon 11
CCGGAAGTGAGAAATTTGTGTTCTTACTGTCAACTAGAGCTGGAGGTCTTGGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTGgtgagcatttctccatttttttttctttttcttttagaatgctagggaattgttatattatttaccaatctggttgatctctttattgcaccgtag
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CAGGAAGTGAGAAATTTGTCTTCTTGTTATCAACTCGTGCTGGAGGTCTTGGTATTAATCTTGCTACTGCTGATGTTGTCATTCTGTACGATAGTGACTGgtcagtatttcaagtagttatggactcagccatctgatttatatctgtaccaaaattat-tttgttgat--ggttggtgcttttacaacag-----
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA07G38050.2 (Glycine max), 5'ss of exon 11
CCGGAAGTGAGAAATTTGTGTTCTTACTGTCAACTAGAGCTGGAGGTCTTGGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTGgtgagcatttctccatttttttttctttttcttttagaatgctagggaattgtta---tattatttaccaatctggttgatctctttattgcaccgtag
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CAGGAAGTGAAAAATTTGTCTTCTTGTTATCTACTCGTGCTGGAGGCCTTGGCATTAATCTTGCTACTGCTGATGTTGTCATTCTTTATGACAGTGACTGgttagtattctt--gttgattgtcagcagccttctaacttgcagtgatgccataagttcatgactaattgtttttgttgataattggtggttataacag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA17G02640.1 (Glycine max), 5'ss of exon 11
CCGGAAGTGAGAAATTTGTGTTCTTACTGTCAACTAGAGCTGGAGGTCTTGGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTGgtgagcatttctccatttttttttctttttcttttagaatgctagggaattgtta---tattatttaccaatctggttgatctctttattgcaccgtag
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CAGGAAGTGAAAAATTTGTCTTCTTGCTATCTACTCGCGCTGGAGGCCTTGGCATTAATCTTGCTACAGCTGATGTTGTTATTCTTTATGACAGTGACTGgcaagtattcat--attgattgtcagcagccttctaacttgcagcggtgccataagttcatgactaattctttttgttgataattggtggttataacag
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 5'ss of exon 11
CCGGAAGTGAGAAATTTGTGTTCTTACTGTCAACTAGAGCTGGAGGTCTTGGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTGgtgagcatttctccatttttttttctttttcttttagaatgctagggaattgttatattatttaccaatctggttgatctctttattgcaccgtag
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CAGGAAGTGAGAAATTCGTTTTCTTGTTATCCACTAGAGCTGGAGGACTTGGTATCAATCTTGCTACTGCAGATGTTGTGATCCTCTATGATAGTGACTGgtaagg----ctctttttgtgtccattgtaatttatgagtgtt------ttcttttatgcctaatgaggtgggtggat-----tatggcag-----
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT3G06400.3 (Arabidopsis thaliana), 5'ss of exon 11
CCGGAAGTGAGAAATTTGTGTTCTTACTGTCAACTAGAGCTGGAGGTCTTGGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTGgtgagcatttctccatttttttttctttttcttttagaatgctagggaattgttatattatttaccaatctggttgatctctttattgcaccgtag
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CAGGAAGTGAGAAATTTGTTTTCTTGTTATCTACTAGAGCTGGAGGGCTTGGTATCAATCTTGCTACTGCAGATGTTGTGATCCTTTACGATAGTGATTGgtaagtctctcatcattgtccactgtagtttat---gaactttc-----tcttcacgtt--tgacgagtctggcatattctggcag----------
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: EFJ06565 (Selaginella moellendorffii), 5'ss of exon 11
CCGGAAGTGAGAAATTTGTGTTCTTACTGTCAACTAGAGCTGGAGGTCTTGGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTGgtgagcatttctccatttttttttctttttcttttagaatgctagggaattgttatattatttaccaatctggttgatctctttattgcaccgtag
||||||||||| ||| | ||||| || || || |||| || ||||||||||||||| | |||||||| ||| | || || || |||||||||||||||| | || | || | | |||| | || | |
AAGGAAGTGAGAAGTTTATATTCTTGCTTTCGACCCGAGCCGGCGGTCTTGGTATCAATTTGGCTACTGCCGATATCGTTATTCTCTATGACAGTGACTGgtaataataatgatttgttctgagtggcatgtttttagaaattatgctgcag--------------------------------------------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: GGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTG GAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCA
genomic: GGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTGgtgagcattt ... tgcaccgtagGAACCCCCAAGTTGATTTGCAAGCACAAGATCGTGCTCATCGGATTGGTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCGGAAGTGAGAAATTTGTGTTCTTACTGTCAACTAGAGCTGGAGGTCTTGGTATCAATCTTGCTACTGCAGATGTTGTCATCCTTTATGACAGTGACTGgtgagcatttctccatttttttttctttttcttttagaatgctagggaattgttatattatttaccaatctggttgatctctttattgcaccgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG