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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtatgaagtaataaactgaatctggagcttatccttagcctcccccattcccttcgtctttggaatcgaaaacacacagcttctttgtctttggtgcagATACTAGCTGGAAATGCCAGAAAGGTGAGCGCTGTTCGGTTTGAACACATAAATAATAATGATGAAATGTTGGAGACTAAAGTAACTCGCATGATCCCCA

Basic information

species Glycine max
transcript GLYMA02G46780.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G46780.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv19s0090g01820.t01 (Vitis vinifera), 3'ss of exon 13
---tgtatgaagtaataaactgaatctggagcttatccttagcctcccccattcccttcgtctttggaatcgaaaacacacagcttctttgtctttggtgcagATACTAGCTGGAAATGCCAGAAAGGTGAGCGCTGTTCGGTTTGAACACATAAATAATAATGATGAAATGTTGGAGACTAAAG---TAACTCGCATGATCCCCA
| || | | || | | || | ||| | | | || || || | |||| | | | | | ||| ||||| ||||| | || |||||||||||||||||||| |||||||||||||||| ||||||||| |||||| |||||||| |||| | |||||| || | |
ttcttagctgtctattggagtgtaatggaagagaggctttatcttgatca---ccatttgtagcagcaatcttgatgatatgtggttatattctgtggtgtagATATTGGCAGGAAATGCCAGAAAGGTGAGTGCTGTTCGGTTTGAACGGATAAATAATGATGATGCCGCATTGGAGACCAAAGAGGTGACTCGCTTGGTTC---
















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|214009119|gb|DB989877.1|DB989877
EST:     ATGCTGACCAGCAGGATCAGAAGGAGAAGAACCAGAGTTTCAAACTTGAG                         ATACTAGCTGGAAATGCCAGAAAGGTGAGCGCTGTTCGGTTTGAACACATA
genomic: ATGCTGACCAGCAGGATCAGAAGGAGAAGAACCAGAGTTTCAAACTTGAGgtaatcagtc ... tttggtgcagATACTAGCTGGAAATGCCAGAAAGGTGAGCGCTGTTCGGTTTGAACACATA
EST: gi|254344924|gb|GR851407.1|GR851407
EST:     ATGCTGACCAGCAGGATCAGAAGGAGAAGAACCAGAGTTTCAAACTTGAG                         ATACTAGCTGGAAATGCCAGAAAGGTGAGCGCTGTTCGGTTTGAACACATA
genomic: ATGCTGACCAGCAGGATCAGAAGGAGAAGAACCAGAGTTTCAAACTTGAGgtaatcagtc ... tttggtgcagATACTAGCTGGAAATGCCAGAAAGGTGAGCGCTGTTCGGTTTGAACACATA
EST: gi|208063340|gb|GD865498.1|GD865498
EST:     AGAAGAACCAGAGTTTCAAACTTGAG                         ATACTAGCTGGAAATGCCAGAAAGGTGAGCGCTGTTCGGTTTGAACACATA
genomic: AGAAGAACCAGAGTTTCAAACTTGAGgtaatcagtc ... tttggtgcagATACTAGCTGGAAATGCCAGAAAGGTGAGCGCTGTTCGGTTTGAACACATA
EST: gi|18733568|gb|BM527687.1|BM527687
EST:     ATGCTGACCAGCAGGATCAGAAGGAGAAGAACCAGAGTTTCAAACTTGAG                         ATACTAGCTGGAAATGCCAGAAAGGTGAGCGCTGTTCGGTTTGAACACATA
genomic: ATGCTGACCAGCAGGATCAGAAGGAGAAGAACCAGAGTTTCAAACTTGAGgtaatcagtc ... tttggtgcagATACTAGCTGGAAATGCCAGAAAGGTGAGCGCTGTTCGGTTTGAACACATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccattcccttcgtctttggaatcgaaaacacacagcttctttgtctttggtgcagATACTAGCTGGAAATGCCAGAAAGGTGAGCGCTGTTCGGTTTGAACACATAAATAATAATGATGAAATGTTGGAGACTAAAGTAACTCGCATGATCCCCA
                                   cttctttgtcttt  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtatgaagtaataaactgaatctggagcttatccttagcctcccccattcccttcgtctttggaatcgaaaacacacagcttctttgtctttggtgcagATACTAGCTGGAAATGCCAGAAAGGTGAGCGCTGTTCGGTTTGAACACATAAATAATAATGATGAAATGTTGGAGACTAAAGTAACTCGCATGATCCCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
tgtatga
- - - - - - - - - - - ctggagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcttctt