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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGATAACACTATAGACTTCATTGGTCATGCTTTGGCGCTTCATAGCGATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttactgcgttatcatgcacttgtaattcattctcattcgtggattcttcttaattgaaaatttcttctgttccatttcgttcccattagctttattgtgtttctctatttaatattcatgtgtgtttcctacttgtag

Basic information

species Glycine max
transcript GLYMA05G30140.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G30140.3 (Glycine max), 5'ss of exon 6
lower sequence: PP1S20_16V6.1 (Physcomitrella patens), 5'ss of exon 6
TGATGATAACACTATAGACTTCATTGGTCATGCTTTGGCGCTTCATAGCGATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttactgcgttatcatgcacttgtaattcattctcattcgtggattcttcttaattgaaaatttcttctgttccatttcgttcccattagctttattgtgtttctctatttaatat---tcatgtgtgtttcctacttgtag
 ||||  ||||| || ||||||||||| ||| |||||||| | ||| | || ||||| | |||| ||||||||||  |||| || ||||||||| |||||||| |  |         | ||   ||  |||  || || |  |  | |  || |  |  || |      | |    | ||     ||   || |||| ||  || ||  ||  |  ||  |   |  | | | ||| ||   || ||
CGATGCCAACACAATTGACTTCATTGGGCATTCTTTGGCGTTGCATCGTGACGATCGTTTCTTGTCTGAGCCAGCGTTGGATACAGTGAAGAGAGTGAAGgtatgcct---------ttatttcctgctaacacactccctgttatag-ctcattctgtttaatccacacgttatcttcacaagatttttatcagctctacagttttgttcgctacaacctgagttgtcttttttttcttggtgcag
















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|192322711|gb|FK014402.1|FK014402
EST:     ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGG
genomic: ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGG
EST: gi|120533277|gb|EH261410.1|EH261410
EST:     ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
genomic: ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
EST: gi|193622227|gb|FK569603.1|FK569603
EST:     ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
genomic: ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
EST: gi|208095648|gb|GD897138.1|GD897138
EST:     CCGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
genomic: CCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
EST: gi|208259467|gb|GE053911.1|GE053911
EST:     ATGATCGCTACTTGGCTGAGCCAGCACTGGACACTGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
genomic: ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
EST: gi|207752054|gb|GD724495.1|GD724495
EST:     ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
genomic: ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
EST: gi|192313374|gb|FK005146.1|FK005146
EST:     ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
genomic: ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
EST: gi|207771777|gb|GD742552.1|GD742552
EST:     ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
genomic: ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
EST: gi|208127908|gb|GD922140.1|GD922140
EST:     ATGATCGCTACTTGGCTGAGCCAGCACTGGACACTGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
genomic: ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
EST: gi|19347279|gb|BM892159.1|BM892159
EST:     ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
genomic: ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
EST: gi|6915949|gb|AW397479.1|AW397479
EST:     ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
genomic: ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
EST: gi|193497014|gb|FK459492.1|FK459492
EST:     ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
genomic: ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
EST: gi|193531593|gb|FK490965.1|FK490965
EST:     TCGCTACTTGGCTGAGCCAGCACTGGACACTGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
genomic: TCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
EST: gi|208337504|gb|GE136384.1|GE136384
EST:     ATGATCGCTACTTGGCTGAGCCAGCACTGGACACTGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
genomic: ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCACCTTACATATAT
EST: gi|254342789|gb|GR858951.1|GR858951
EST:     ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAG                         TTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCAC
genomic: ATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttac ... ctacttgtagTTATATGCAGAGTCTCTTGCACGCTTTCAAGGAGGGTCAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATGATAACACTATAGACTTCATTGGTCATGCTTTGGCGCTTCATAGCGATGATCGCTACTTGGCTGAGCCAGCACTGGACACCGTGAAGAGAATGAAGgtaagtttactgcgttatcatgcacttgtaattcattctcattcgtggattcttcttaattgaaaatttcttctgttccatttcgttcccattagctttattgtgtttctctatttaatattcatgtgtgtttcctacttgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA