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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCCTTTGCAAAGAAGGATTGGTACGACATCAAGGCTCCTTCTGTCTTCGAAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAGgtaggggtttcatcattttttttactgttttttgtttttagtattttagtcgtcaaatgtgtcattgcagttgaatgagcttctctagttcagggttgag...

Basic information

species Vitis vinifera
transcript Vv05s0020g03900.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g03900.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os02g18550.1 (Oryza sativa), 5'ss of exon 2
TCCCTTTGCAAAGAAGGATTGGTACGACATCAAGGCTCCTTCTGTCTTCGAAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAGgtaggggtttcatcatttttt-ttactgttttttgtttttagtattttagtcgtcaaatg-tgtcattgcagttgaatgagcttctct-agttcagggttgag---
||||||| | |||||||||||||||||||||||||| ||  | || |||   || |||||  ||||||| |||||||| ||| | |||||||| ||||||||  |  ||   || ||     ||   |    |     | | |     |   |    ||| | |||||    ||| || |   ||| | ||| || |   |     
TCCCTTTTCCAAGAAGGATTGGTACGACATCAAGGCGCCGACCGTGTTCTCCGTCCGCAACATCGGCAAGACCCTCGTCTCCAGGACCCAGGGGACCAAGgttcg--ttcgttcgttccccattcgcgcccgtcaacctcaatccgcgatctgatccatgctttcatt----ttgtatcactgtctgtgagtacatgtgcggaatc

upper sequence: Vv05s0020g03900.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA10G39050.1 (Glycine max), 5'ss of exon 2
TCCCTTTGCAAAGAAGGATTGGTACGACATCAAGGCTCCTTCTGTCTTCGAAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAGgtaggggtttcatcattttttttactgttttttgtttttagtattttagtcgtcaaatgt-gtcattgcagt-tgaatgagcttctctagttcagggttgag
||||||||| |||||||||||||| ||||| |||||||||||||| ||  ||||    ||||| |||||||||||||| || || || |||||||||||||||  | |||    || ||    |  |  ||  | ||||    ||||| | |   | | | |   |||   | ||  | || | |   | |   |       
TCCCTTTGCCAAGAAGGATTGGTATGACATTAAGGCTCCTTCTGTTTTTCAAGTGAAAAATGTTGGCAAAACCCTCGTCTCTCGTACTCAGGGTACCAAGgtactgcttttcgaatattcaacagggaattgggattttccctttttaattgaatattattggttttgtgttgtgggtcagttgcataaatcttgaaaat--

upper sequence: Vv05s0020g03900.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA20G28780.3 (Glycine max), 5'ss of exon 2
TCCCTTTGCAAAGAAGGATTGGTACGACATCAAGGCTCCTTCTGTCTTCGAAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAGgtaggggtttcatcattttttttactgttttttg-tttttagtattttagtcgtcaaatgtgtcattgcagttgaatgagcttctctagttcagggttgag
||||||||| |||||||||||||| ||||| ||||| |||||| | ||  ||||    ||||| |||||||||||||| || || || |||||||||||||||  | ||     || ||    |  |  ||  | |||||  | ||||  | ||  ||| | |   |   ||    || |  | |    |      |  | 
TCCCTTTGCCAAGAAGGATTGGTATGACATTAAGGCCCCTTCTCTTTTTCAAGTGAAAAATGTTGGCAAAACCCTCGTCTCTCGTACGCAGGGTACCAAGgtattgtttgtcgaatattcaacagagaattgggatttttcctttttttattgt-gaatttattggttttgtgttgtgggtctgttgtatgggtcttcaaa

upper sequence: Vv05s0020g03900.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA06G11940.1 (Glycine max), 5'ss of exon 2
TCCCTTTGCAAAGAAGGATTGGTACGACATCAAGGCTCCTTCTGTCTTCGAAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAGgtaggggtttcatcattttttttactgttttttgtttttagtattttagtcgtcaaatgtgtcattg-cagttgaatgagcttctctagttcagggttgag-----
||| ||| | ||||||||||||||||| |||||||| |||||||| ||| | ||    ||||| ||||| ||||||||  | || || ||||| ||||||||     || |||  |||||| ||  |  || | |  |   |   |||   | ||  | |    | |  |  | | |    |  |||     || || |       
TCCTTTTACCAAGAAGGATTGGTACGATATCAAGGCCCCTTCTGTGTTCCAGGTCAAGAATGTTGGCAAGACCCTCGTCACTCGTACTCAGGGCACCAAGgtc----ttacatt-ttttttatatagacttgtatcatcgttgggttatctg-catttataatttggataaataattattttattctctgcaagcgtcgtcacatg

upper sequence: Vv05s0020g03900.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: PP1S179_15V6.1 (Physcomitrella patens), 5'ss of exon 2
TCCCTTTGCAAAGAAGGATTGGTACGACATCAAGGCTCCTTCTGTCTTCGAAGTTCGCAATGTCGGCAAA-ACCCTCGTTTCCCGCACCCAGGGTACCAAGgta--ggggtttcatcattttttt--tactgttttttgtttttagtattttagtcg--------tcaaatgtgtcattgcagttgaatgagcttctctagttcagggttgag---------------------------
||| ||  | |||||||||||||| |||||||||||||||     |||| | |        || ||  || ||||||||  || | ||   ||||||||||||    |||||| ||  ||| |||  |  | ||| ||  |||   ||||  ||| |        ||  |  ||  || |   |    ||   |||| || ||      |||                            
TCCTTTCTCCAAGAAGGATTGGTATGACATCAAGGCTCCTAACACCTTC-ACGCAGAAGTCGTTGGGGAAGACCCTCGTCACCAGGACGGCGGGTACCAAGgtgcgagggtttgattgtttgtttgtttttatttatttgtttgtttattaaagttgggtttatctctgacctggtatggttatactgtgcatttctgtaattagcttctgatgagaggttttgtttgtttgggtttcag

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|161711436|gb|FC061201.1|FC061201
EST:     AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAG                         ATAGCTTCTGAAGGGCTCAAACATCGGGTGTATGAGATATCACTTGCTGAC
genomic: AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAGgtaggggttt ... cctctaacagATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
EST: gi|71871064|gb|DT020119.1|DT020119
EST:     AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAG                         ATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
genomic: AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAGgtaggggttt ... cctctaacagATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
EST: gi|77585608|gb|DV221898.1|DV221898
EST:     AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAG                         ATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
genomic: AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAGgtaggggttt ... cctctaacagATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
EST: gi|71890772|gb|DT039827.1|DT039827
EST:     AAGTTCGCAATGTCGGCAAAACTCTCGTTTCCCGCACCCAGGGTACCAAG                         ATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
genomic: AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAGgtaggggttt ... cctctaacagATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
EST: gi|77580898|gb|DV219373.1|DV219373
EST:     AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAG                         ATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
genomic: AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAGgtaggggttt ... cctctaacagATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
EST: gi|71855034|gb|DT004089.1|DT004089
EST:     AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAG                         ATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
genomic: AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAGgtaggggttt ... cctctaacagATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
EST: gi|71868214|gb|DT017269.1|DT017269
EST:     AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAG                         ATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
genomic: AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAGgtaggggttt ... cctctaacagATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
EST: gi|71873149|gb|DT022204.1|DT022204
EST:     AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAG                         ATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
genomic: AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAGgtaggggttt ... cctctaacagATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
EST: gi|77578681|gb|DV218125.1|DV218125
EST:     AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAG                         ATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC
genomic: AAGTTCGCAATGTCGGCAAAACCCTCGTTTCCCGCACCCAGGGTACCAAGgtaggggttt ... cctctaacagATAGCTTCTGAAGGGCTCAAACATCGGGTGTTTGAGATATCACTTGCTGAC