Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTGGATTGCAGCAAATTCAGTTGGATATTCAGTTCCTGAGAGTTCCTTTGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctctgtagtggttctcttttatgctctttctcttttttgtttttattttatttatttttctttcccttagttatttgcttgcaagcccacaaa...

Basic information

species Vitis vinifera
transcript Vv07s0005g01440.t01
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g01440.t01 (Vitis vinifera), 5'ss of exon 19
lower sequence: GLYMA02G01610.1 (Glycine max), 5'ss of exon 20
GAGTGGATTGCAGCAAATTCAGTTGGATATTCAGTTCCTGAGAGTTCCTTTGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgt-----aagttctctgtagtg-gttctcttttat-gctctttctcttttttgtttttattttatttatttt---tctttcccttagttatttgct--tgcaagcccacaaa---------------------------------------------------------------------
 |||||||| ||||||||||| |||||||| |||||||| ||| | ||||| | |||||| |||||||| |||||||| || |||||| |||| ||||||||     || |||||   |||   |  |  || || |   |  |     ||| ||   ||   | |||  ||   | || |  ||| || ||| ||  |  || | ||                                                                         
AAGTGGATTCCAGCAAATTCAATTGGATATCCAGTTCCTAAGAATCCCTTTAAGGGAAATAGTTGAAGATGAAGCTGCAATCGACTTCTTGCTAGATGAGgttggaaaaattctcctaagtatataattcttcatagagatgccatgcattttttccaatgagaattacctttagttttgctgttatttttttcctgttctaaactcatgcgtgggttatagcttcttaaatcttatgtatctatcgtgcatattttattttttgtatgttttgggcatag

upper sequence: Vv07s0005g01440.t01 (Vitis vinifera), 5'ss of exon 19
lower sequence: GLYMA10G01660.1 (Glycine max), 5'ss of exon 20
GAGTGGATTGCAGCAAATTCAGTTGGATATTCAGTTCCTGAGAGTTCCTTTGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctctgtagtggttctcttttatgctctttctcttttttgtttttattttatttattttt---ctttcccttagttatttgcttgcaagcccacaaa
 |||||||| ||||||||||| |||||||| |||||| | ||  | ||||| |  ||||| |||||||| |||||||| || |||||| |||| ||||||||  |   |  ||  |  || |   |  || | |    | |||||  | | ||   | |||  | |    || || ||| || ||| |||   |   | |   
AAGTGGATTCCAGCAAATTCAATTGGATATCCAGTTCGTAAGGATCCCTTTAAGAGAAATAGTTGAAGATGAAGCTGCAATCGACTTCTTGCTAGATGAGgttggaattaagttataatttttcatagtgatgtcatgcattttt--tctaatgagaattacctgtagctttgccgttatttttttccttatcaaaactctt-
















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|30324169|gb|CD007431.1|CD007431
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|71889645|gb|DT038700.1|DT038700
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTTCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACC
EST: gi|30323970|gb|CD007232.1|CD007232
EST:     TGAAGGAAATTGTTGAAGACGACGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTG
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTG
EST: gi|32267461|gb|CD716424.1|CD716424
EST:     GAAGNGAA-TTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTA
genomic: GAAG-GAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTA
EST: gi|30325708|gb|CD008970.1|CD008970
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|45770267|gb|CN006119.1|CN006119
EST:     TGAAGGAAATTG-TGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|22013914|gb|BQ798948.1|BQ798948
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|110428353|gb|EC994822.1|EC994822
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|30327626|gb|CD010888.1|CD010888
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|32269349|gb|CD718508.1|CD718508
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|45771559|gb|CN007411.1|CN007411
EST:     TGAAGGAAATT-TTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|32269302|gb|CD718461.1|CD718461
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|110424565|gb|EC990929.1|EC990929
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|32248389|gb|CD714208.1|CD714208
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|32267654|gb|CD716617.1|CD716617
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|32268218|gb|CD717377.1|CD717377
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|32248728|gb|CD714547.1|CD714547
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|32270860|gb|CD720019.1|CD720019
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCNCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
EST: gi|32268333|gb|CD717492.1|CD717492
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTAT
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTAT
EST: gi|22011563|gb|BQ796597.1|BQ796597
EST:     TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAG                         GTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC
genomic: TGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctc ... gttttgacagGTGATTGTTTCTGCTGCTGAGCGATGTCTGGACCCTATTCCCCTGGAGCCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGTGGATTGCAGCAAATTCAGTTGGATATTCAGTTCCTGAGAGTTCCTTTGAAGGAAATTGTTGAAGACGAAGCTGCCATTGACTTCCTGCTGGATGAGgtaagttctctgtagtggttctcttttatgctctttctcttttttgtttttattttatttatttttctttcccttagttatttgcttgcaagcccacaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctttccc