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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgagatatttttgtgttactgtgatgacagcaatagcaggtcactaatttcttgtgttgcaattcagttgctgatatcagaatcttccatgtcaaattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCAAGAAAGATTAGCCCAAGAGTATTTGATGCTGATTTATCTAAGGAAAAGA

Basic information

species Glycine max
transcript GLYMA08G15340.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G15340.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 3'ss of exon 5
--------------------------------------gtatgagatatttttgtgttactgtgatgacagcaatagcaggtcactaatttcttgtgttgcaattcagtt----gctgatatcagaatcttccatgtcaaattgta------------tagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCAAGAAAGATTAGCCCAAGAGTATTTGATGCTGATTTATCTAAGGAAAAGA
                                       ||  |  |||| || | ||  | |  | |   |     |   | | |  |  ||| | ||    ||  |||    | |||||     |  ||  |||| | | |||              |||| ||  ||||| |||||||||| |||||||||||||||||||| |||||||| ||||| ||||| || || || ||||||||||  || || |||||||
gtacgtgttatcttctttcattgttcttttaattacttctaccatttattcttttattgttcttttaattacttgtaccatttattcgtaacttattttatttttgggttcaaagttgataatgctactttttatgtaataatgttgaaattacttttcagGTCCGGCTGTGTTTAGACCGCCAAGATTATGTTCGTGCACAAATTCTCTCAAGGAAGATCAGCCCGAGGGTTTTCGATGCTGATTCTTCAAAAGAAAAGA
















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|14990252|gb|BI315925.1|BI315925
EST:     CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA                         GTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagata ... aattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|308097990|gb|HO761161.1|HO761161
EST:     CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA                         GTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagata ... aattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|308098358|gb|HO760099.1|HO760099
EST:     CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA                         GTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagata ... aattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|308098130|gb|HO761301.1|HO761301
EST:     CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA                         GTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagata ... aattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|192296110|gb|FG989470.1|FG989470
EST:     CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA                         GTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagata ... aattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|6566939|gb|AW234570.1|AW234570
EST:     CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA                         GTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagata ... aattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|15286081|gb|BI469972.1|BI469972
EST:     CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA                         GTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagata ... aattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|192334269|gb|FK024396.1|FK024396
EST:     CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA                         GTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagata ... aattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|19054166|gb|BM732833.1|BM732833
EST:     CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA                         GTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagata ... aattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|26057523|gb|CA800437.1|CA800437
EST:     CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA                         GTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagata ... aattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|18734293|gb|BM528099.1|BM528099
EST:     CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA                         GTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
genomic: CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagata ... aattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|15284757|gb|BI468648.1|BI468648
EST:     CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA                         GTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCC
genomic: CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagata ... aattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|12690044|gb|BG156380.1|BG156380
EST:     CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA                         GTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAGATACTCTCA
genomic: CATTCGGTGCCATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagata ... aattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCA
EST: gi|193447151|gb|FK412338.1|FK412338
EST:     CATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAA                         GTTCGTTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTC
genomic: CATGGCCAAGACTGAGAAAATTGCGTTCATTCTTGAACAAgtatgagata ... aattgtatagGTTCG-TTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgtgttgcaattcagttgctgatatcagaatcttccatgtcaaattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCAAGAAAGATTAGCCCAAGAGTATTTGATGCTGATTTATCTAAGGAAAAGA
                   tgctgat  putative branch site (score: 3)
                                            aaattgtata  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgagatatttttgtgttactgtgatgacagcaatagcaggtcactaatttcttgtgttgcaattcagttgctgatatcagaatcttccatgtcaaattgtatagGTTCGTTTGTGTCTAGACCGCCAGGATTATGTTCGTGCACAAATACTCTCAAGAAAGATTAGCCCAAGAGTATTTGATGCTGATTTATCTAAGGAAAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA