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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACCTATACAATTGAGGCTATGATGGGTGATCGGAAGGCTCTACAGGCTGGAACCAGCCACAACCTTGGACAGAATTTTTCTCGTGCTTTTGGAACACAGgttcttgtcatttgacttcacttgttttctaatattcattctaggccatgttttctgatattcagtgctcagctgcgaactgagtatattgtttacctag...

Basic information

species Vitis vinifera
transcript Vv16s0050g00960.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os07g07060.1 (Oryza sativa), 5'ss of exon 4
GACCTATACAATTGAGGCTATGATGGGTGATCGGAAGGCTCTACAGGCTGGAACCAGCCACAACCTTGGACAGAATTTTTCTCGTGCTTTTGGAACACAGgttcttgtc---atttgacttcacttgttttctaatattcattctaggccatgttt-tctgatattcagtgctcagctgcgaactgagtatattgtttacctag
|||||| || || || ||||||||||||||  |||||||| |||||||||||||||||||||||||||||||||| || || ||||| |||||||||||||||  |||      || |||    |  | ||||  | |   || |   |        | | || | |  |  |  | | |   ||  ||  || |||    || 
GACCTACACTATAGAAGCTATGATGGGTGACAGGAAGGCTTTACAGGCTGGAACCAGCCACAACCTTGGACAGAACTTCTCCCGTGCCTTTGGAACACAGgttactgtttggtgtttactatcttcatgttcttgtttgttttgtgtactggaaccattttatgtaccatttttggattc---ctatgt-catagttgctataa

upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G107089_T01 (Zea mays), 5'ss of exon 6
GACCTATACAATTGAGGCTATGATGGGTGATCGGAAGGCTCTACAGGCTGGAACCAGCCACAACCTTGGACAGAATTTTTCTCGTGCTTTTGGAACACAGgttcttgtcatttgacttcac------ttgttttctaatattcattctaggccatgttttctgatatt-cagtgctcagctgcgaactgagtatattgtttacctag------------------------------------------------
|||||| || || || ||||||||||||||   ||||||  |||| |||||||| || ||||||||||| || || ||||| || ||||||||||||||||||  |  ||  |  |||||        ||  |||   | ||   || |  | ||   || | | ||| |||  |     | |  |  || |  ||| | | | |                                                  
GACCTACACTATAGAAGCTATGATGGGTGACAAGAAGGCCTTACAAGCTGGAACTAGTCACAACCTTGGCCAAAACTTTTCACGAGCTTTTGGAACACAGgttgctaccaactctcttcatatcgtgatgacttcatgtgttggatccattctatacattttaaaatttcagaacattttttcacaaggattggattttgttctttttaattctttcttgttttcaaacattttgatttttttcattgtctgcag

upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA16G29890.1 (Glycine max), 5'ss of exon 6
GACCTATACAATTGAGGCTATGATGGGTGATCGGAAGGCTCTACAGGCTGGAACCAGCCACAACCTTGGACAGAATTTTTCTCGTGCTTTTGGAACACAGgttcttgtcatttgacttcacttgt-tttcta-atattcattctaggccatgttttctgatattcagtgctcagctgcgaactgagtatattgtttacctag----------------
||||||||| |||||||||||||||||||||  ||| ||  |||| || |||||||| || |||||||| || || ||| | ||||| ||||||||||||||       | ||   |  |  | | | | || ||||  ||| |      | | || | |   | | |      ||   || |||| ||   ||| | | |                 
GACCTATACGATTGAGGCTATGATGGGTGATAAGAAAGCATTACAAGCAGGAACCAGTCATAACCTTGGGCAAAACTTTGCCCGTGCCTTTGGAACACAGgtctgatgtacttatatatatatatatatatatatatatatttttttttttttcttttaaatattaatataatccttttaa-tgaggatgcagttgatcaaaatgtgttcttgtgcag

upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA09G24670.1 (Glycine max), 5'ss of exon 6
GACCTATACAATTGAGGCTATGATGGGTGATCGGAAGGCTCTACAGGCTGGAACCAGCCACAACCTTGGACAGAATTTTTCTCGTGCTTTTGGAACACAGgttcttgtcatttgacttcacttgttttctaatattcattctaggccatgtt-ttctgatattcagtgctcagctgcgaactgagtatattgtttacctag
||||||||||||||||||||||||||||||   ||| ||  |||| || |||||||| || |||||||| || || ||| | ||||| ||||||||||||||   ||   |     ||   || | |    |||||  |        || |  | ||  |  | ||    ||| |||  |   | | | | | ||    ||
GACCTATACAATTGAGGCTATGATGGGTGACAAGAAAGCATTACAAGCAGGAACCAGTCATAACCTTGGGCAAAACTTTGCCCGTGCCTTTGGAACACAGgtc--tgatgtactgttttttttatatatatatatttttaaatattaatataatccttttgatgaggatgcagttgctca--aaatgtgt-gcttgtgcag

upper sequence: Vv16s0050g00960.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT5G52520.1 (Arabidopsis thaliana), 5'ss of exon 6
GACCTATACAATTGAGGCTATGATGGGTGATCGGAAGGCTCTACAGGCTGGAACCAGCCACAACCTTGGACAGAATTTTTCTCGTGCTTTTGGAACACAGgttcttgtcatttgacttcac-ttgttttctaatattcattctaggccatgttt-tctgatattcagtgctc--agctgcgaactgagtatattgtt--tacctag--------------------------------------------------------------------------
 |||||||| ||||||||||||||||| |||||||||||| | |||||||| || ||||||||  | || ||||| ||||||||||| |||||||| ||||| |    |  ||    || |     | | | ||  | ||           ||| | ||   || ||| |||  |  |    | |||  ||| | ||  | ||||                                                                           
AACCTATACTATTGAGGCTATGATGGGAGATCGGAAGGCTTTGCAGGCTGGTACTAGCCACAATTTAGGCCAGAACTTTTCTCGTGCCTTTGGAACTCAGgtacagaactattattgtctcacaagtatgtcatgcttatcgagacttgaatttgtttggagtttagttctctcatttttttagtgacgatagtattggtgcctactggttcatttagtcacatcttcgttttgcaacttcatcatgaaagaatgttaaatgacgtaatgatgatgccag

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|110711045|gb|EE087798.1|EE087798
EST:     GAACCAGCCACAACCTTGGACAGAATTTTTCTCGTGCTTTTGGAACACAG                         TTCACCGATGAAAATGGACAAAGACAACACATATGGCAGACATCATGGGCA
genomic: GAACCAGCCACAACCTTGGACAGAATTTTTCTCGTGCTTTTGGAACACAGgttcttgtca ... gcttgtatagTTCACTGATGAAAATGGACAAAGACAACACATATGGCAGACATCATGGGCA
EST: gi|351023829|gb|FQ448380.1|FQ448380
EST:     GAACCAGCCACAACCTTGGACAGAATTTTTCTCGTGCTTTTGGAACACAG                         TTCACCGATGAAAATGGACAAAGACAACACATATGGCAGACATCATGGGCA
genomic: GAACCAGCCACAACCTTGGACAGAATTTTTCTCGTGCTTTTGGAACACAGgttcttgtca ... gcttgtatagTTCACTGATGAAAATGGACAAAGACAACACATATGGCAGACATCATGGGCA
EST: gi|27586757|gb|CB009452.1|CB009452
EST:     GAACCAGCCACAACCTTGGACAGAATTTTTCTCGTGCTTTTGGAACACAG                         TTCACCGATGAAAATGGACAAAGACAACACATATGGCAGACATCATGGGCA
genomic: GAACCAGCCACAACCTTGGACAGAATTTTTCTCGTGCTTTTGGAACACAGgttcttgtca ... gcttgtatagTTCACTGATGAAAATGGACAAAGACAACACATATGGCAGACATCATGGGCA