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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttattacattttagagaactagctcctatctgtagttctaggtgaacaatacaaggttttctatattttttttcttgaatttcttgatttgctttgcaccctcctgacaatgttttatgcagCGAGTTGCGGTATTACATCTAGAAGAAAGGTGTGAACGAGCAATTGAATGGGCATTAAAGATTGAGCCTTCCATAAAACATTTG

Basic information

species Vitis vinifera
transcript Vv15s0048g00390.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0048g00390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os12g29990.2 (Oryza sativa), 3'ss of exon 9
gttattacattttagagaactagctcctatctgtagttctaggtgaacaatacaaggttttctatattttttttcttgaatttcttgatttgctttgcaccctcctgacaatgttttatgcagCGAGTTGCGGTATTACATCTAGAAGAAAGGTGTGAACGAGCAATTGAATGGGCATTAAAGATTGAGCCTTCCATAAAACATTTG
                                                  ||||   |   | || | ||||   |     ||| |||     || | |   | ||||   ||   | ||||||||||||| || |||||| | |||||||| ||  | |||||| ||||||||||||| ||||| |||||||| || ||| | || 
---------------------------------------------gtttttacatcataggcaatgtattttcatta----ttcatgaagattttggtagttttctgatgttgacctctgcagCGAGTTGCTGTTTTACATTTGGAAGAAAGATGCCAGCGAGCAGTTGAATGGGCATTGAAGATGGAGCCTTCTATTAAATACTTT

upper sequence: Vv15s0048g00390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G420055_T02 (Zea mays), 3'ss of exon 6
gttattacattttagagaactagctcctatctgtagttctaggtgaacaatacaaggttttctatattttttttcttgaatttcttgatttgctttgcaccctcctgacaatgttttatgcagCGAGTTGCGGTATTACATCTAGAAGAAAGGTGTGAACGAGCAATTGAATGGGCATTAAAGATTGAGCCTTCCATAAAACATTTG----------------
                                   ||| ||   ||   |||  | ||  || ||  |   |     ||   | | ||| | |||| |    |  | |   |||  ||||||||||||||| || |||||| | |||||||||||||| |||||| ||||||||||||| || || || |||||||| ||| | ||                 
-----------------------------------gttgtacacgatggata--atgtactcaatgctcact-----gaggatttcgatat-ctttac----taataattttgtcctatgcagCGAGTTGCTGTGTTACATTTGGAAGAAAGGTGTGAGCGAGCAGTTGAATGGGCATTGAATATGGAACCTTCCATCAAATACTTTGTAACTCAGATATCTT

upper sequence: Vv15s0048g00390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G420055_T01 (Zea mays), 3'ss of exon 6
gttattacattttagagaactagctcctatctgtagttctaggtgaacaatacaaggttttctatattttttttcttgaatttcttgatttgctttgcaccctcctgacaatgttttatgcagCGAGTTGCGGTATTACATCTAGAAGAAAGGTGTGAACGAGCAATTGAATGGGCATTAAAGATTGAGCCTTCCATAAAACATTTG
                                   ||| ||   ||   |||  | ||  || ||  |   |     ||   | | ||| | |||| |    |  | |   |||  ||||||||||||||| || |||||| | |||||||||||||| |||||| ||||||||||||| || || || |||||||| ||| | || 
-----------------------------------gttgtacacgatggata--atgtactcaatgctcact-----gaggatttcgatat-ctttac----taataattttgtcctatgcagCGAGTTGCTGTGTTACATTTGGAAGAAAGGTGTGAGCGAGCAGTTGAATGGGCATTGAATATGGAACCTTCCATCAAATACTTT

upper sequence: Vv15s0048g00390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G33720.1 (Glycine max), 3'ss of exon 11
--------------------------------------------------------gttattacattttagagaa--ctagctcctatctgtagtt--ctaggtgaacaataca---aggttttctatattttttttcttgaat-ttcttgatttgctttgcaccctcctgacaatgttttatgcagCGAGTTGCGGTATTACATCTAGAAGAAAGGTGTGAACGAGCAATTGAATGGGCATTAAAGATTGAGCCTTCCATAAAACATTTG
                                                        |||| |  | |||||      |   ||| | | |  | ||  ||   |      | ||   |  |||     |||| ||||      | || |  |  | || |  |      |  | |  | | | ||||||| |||| || |||||||| || ||||||||||||||||||||    |||||||| ||||| ||||||||||||| ||| |||
gttagttatacttttgtacattctgtagattacgagtgtctcccctttcaagtctagttaatgaagtttagtatctccctcctcttgtttaaaatttcctcattttctctttcattcacatttaacccatttgttttagcatgtgttgtataactactatctatttcattttctacatgtcaagcagCGAATTGCTGTGTTACATCTTGAGGAAAGGTGTGAACGAGCAATACTGTGGGCATTTAAGATGGAGCCTTCCATAAGACACTTG

upper sequence: Vv15s0048g00390.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA03G03250.1 (Glycine max), 3'ss of exon 9
----------------------------------------------------------gttattacattttagaga--actagctcctatctgtagtt--ctaggtgaacaataca---aggttttctatattttttttcttgaatttcttg-atttgctttgcaccctcctgacaatgttttatgcagCGAGTTGCGGTATTACATCTAGAAGAAAGGTGTGAACGAGCAATTGAATGGGCATTAAAGATTGAGCCTTCCATAAAACATTTG
                                                          |||| || | |||||      |  |||| | | |  | ||  ||          | ||   |  |||     |||| ||||      | || |  |  | || |  |      |  | |  | | | ||||||| |||| || |||||||| || || |||||||||||||||||  | |||||||| ||||| ||||||||||||| ||| |||
gttagttatacttttgtacattttgtagattacaagagtgtcttccctttcaagtctagttaataaagtttagtatctccctgctcttgtttaaaatttcctcatcttctctttcattcacatttaacccatttgttttagcatgtgtcatataactactatctatttcattttctacatatcaagcagCGAATTGCTGTGTTACATCTTGAGGAGAGGTGTGAACGAGCAATACAGTGGGCATTGAAGATGGAGCCTTCCATAAGACACTTG

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|71867429|gb|DT016484.1|DT016484
EST:     CAAGTAGTGAAGACAGAAGTTCCCGAGCTGATATTGCTGCCTCTTTCCAG                         CGAGTTGCGGTATTACATCTAGAAGAAAG-TGTGAACGAGCAATTGA-TGG
genomic: CAAGTAGTGAAGACAGAAGTTCCCGAGCTGATATTGCTGCCTCTTTCCAGgttattacat ... ttttatgcagCGAGTTGCGGTATTACATCTAGAAGAAAGGTGTGAACGAGCAATTGAATGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttcttgaatttcttgatttgctttgcaccctcctgacaatgttttatgcagCGAGTTGCGGTATTACATCTAGAAGAAAGGTGTGAACGAGCAATTGAATGGGCATTAAAGATTGAGCCTTCCATAAAACATTTG
                                  tcctgac  putative branch site (score: 2)
                                         aatgttttat  TA-rich tract