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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAGCTTTCATGAAGCAAGTTCAAAATCTAGTCACCCCATTATTGTTGATGGGGCTATTTCTTACATCCTTTTCGTTTGGTCCTCGTGAACAGAAGCAGgtaagcacaactactttgtattactagggctagtctttgttttaatttgcttatgtgggtgaagttgggttgagaactcaatatatgaaattatgaatat...

Basic information

species Glycine max
transcript GLYMA12G06530.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G06530.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv06s0004g05030.t01 (Vitis vinifera), 5'ss of exon 4
GGAAGCTTTCATGAAGCAAGTTCAAAATCTAGTCACCCCATTATTGTTGATGGGGCTATTTCTTACATCCTTTTCGTTTGGTCCTCGTGAACAGAAGCAGgtaagca-caactactttgtattactagggctagtctttgtt-ttaatttgcttatgtgggtgaagttgggttgagaactcaatatatgaaattatgaatat
|||| |||||||||||||  |||||||| |  | || || || ||| |||| || || |||||| ||||||| || |||||||| ||||||||||||||||||| || ||  ||  || | ||   ||| |  |  || ||| || |||    ||| |    ||| |   |||      |  || ||       |||  | |
GGAAACTTTCATGAAGCAGCTTCAAAATGTCCTAACTCCTTTGTTGGTGATTGGACTGTTTCTTTCATCCTTCTCTTTTGGTCCACGTGAACAGAAGCAGgtaaacatcatttagattatgttttaaggacctgagttagttatttattatgctatattctggaattatagttattttattgat-tacagtggcatgg-tgt
















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|120534289|gb|EH262422.1|EH262422
EST:     TGGGGCTATTTCTTACATCCTTTTCGTTTGGTCCTCGTGAACAGAAGCAG                         ATTAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGAC
genomic: TGGGGCTATTTCTTACATCCTTTTCGTTTGGTCCTCGTGAACAGAAGCAGgtaagcacaa ... ttctttgcagATTAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGAC
EST: gi|208068314|gb|GD866612.1|GD866612
EST:     TGGGGCTATTTCTTACATCCTTTTCGTTTGGTCCTCGTGAACAGAAGCAG                         ATTAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGAC
genomic: TGGGGCTATTTCTTACATCCTTTTCGTTTGGTCCTCGTGAACAGAAGCAGgtaagcacaa ... ttctttgcagATTAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGAC
EST: gi|163923237|gb|EH039651.1|EH039651
EST:     TGGGGCTATTTCTTACATCCTTTTCGTTTGGTCCTCGTGAACAGAAGCAG                         ATTAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGAC
genomic: TGGGGCTATTTCTTACATCCTTTTCGTTTGGTCCTCGTGAACAGAAGCAGgtaagcacaa ... ttctttgcagATTAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGAC
EST: gi|209707156|gb|BW656773.1|BW656773
EST:     TGGGGCTATTTCTTACATCCTTTTCGTTTGGTCCTCGTGAACAGAAGCAG                         ATTAGCTTTCAGGAGTTTAAAA-CAAGCTTTTGGAACCAGGATTAGTAGAC
genomic: TGGGGCTATTTCTTACATCCTTTTCGTTTGGTCCTCGTGAACAGAAGCAGgtaagcacaa ... ttctttgcagATTAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGAC
EST: gi|22522573|gb|BU081384.1|BU081384
EST:     GAACAGAAGCAG                         ATTAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGAC
genomic: GAACAGAAGCAGgtaagcacaa ... ttctttgcagATTAGCTTTCAGGAGTTTAAAAACAAGCTTTTGGAACCAGGATTAGTAGAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAAGCTTTCATGAAGCAAGTTCAAAATCTAGTCACCCCATTATTGTTGATGGGGCTATTTCTTACATCCTTTTCGTTTGGTCCTCGTGAACAGAAGCAGgtaagcacaactactttgtattactagggctagtctttgttttaatttgcttatgtgggtgaagttgggttgagaactcaatatatgaaattatgaatat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgggtg