Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acatattgtgatttcacccagagctgaaaaatgaatgttctagagctattaagtgttttacatcaacagtactatttactaatattttgtttttctccagTGTCAGAAGTGATCTTTGTGATAACCTCAGCTGTGAAGGATGTATGTGGGAAGCCCCCAAGTGAACGTCTTTTCCTGGATAAATATGGAAGAATTTGTTT

Basic information

species Glycine max
transcript GLYMA15G01150.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G01150.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0002g06730.t01 (Vitis vinifera), 3'ss of exon 3
acatattgtgatttcacccagagctgaaaaatgaatgttctagagctattaagtgttttacatcaacagta-ctatttactaatattttgtttttctccagTGTCAGAAGTGATCTTTGTGATAACCTCAGCTGTGAAGGATGTATGTGGGAAGCCCCCAAGTGAACGTCTTTTCCTGGATAAATATGGAAGAATTTGTTT
    || |   |||||   | ||| ||    |  |  || ||    | || |     || |        ||  ||  |  |  |  ||  ||| | |  |||| |||||||||||||||| |||| |||| ||||||| ||||| ||||||||||| |||| ||| || || ||||| ||||| || ||||  || || ||
-agaatggcactttcatttatagcagagttgttgaccttttaagattcttgatcccattgctgattttttaattacctttttctggttgatttctttgaagTGGCAGAAGTGATCTTTGTTATAATCTCATCTGTGAAAGATGTCTGTGGGAAGCCTCCAACTGAGCGCCTCTTCCTTGATAAGTACGGAAAGATATGCTT
















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|31460646|gb|CD402674.1|CD402674
EST:     GGATGTCAGTATATATGTTGTGGGGAAGGAAGAGTATGATGAACTTGCTT                         TGTCAGAAGTGATCTTTGTGATAACCTCAGCTGTGAAGGATGTATGTGGGA
genomic: GGATGTCAGCATATATGTTGTGGGGAAGGAAGAGTATGATGAACTTGCTTgtacgtattc ... ttttctccagTGTCAGAAGTGATCTTTGTGATAACCTCAGCTGTGAAGGATGTATGTGGGA
EST: gi|7924126|gb|AW830152.1|AW830152
EST:     TTGTGGGGAAGGAAGAGTATGATGAACTTGCTT                         TGTCAGAAGTGATCTTTGTGATAACCTCAGCTGTGAAGGATGTATGTGGGA
genomic: TTGTGGGGAAGGAAGAGTATGATGAACTTGCTTgtacgtattc ... ttttctccagTGTCAGAAGTGATCTTTGTGATAACCTCAGCTGTGAAGGATGTATGTGGGA
EST: gi|27425069|gb|CA936589.1|CA936589
EST:     GGATGTCAGCATATATGTTGTGGGGAAGGAAGAGTATGATGAACTTGCTT                         TGTCAGAAGTGATCTTTGTGATAACCTCAGCTGTGAAGGATGTATGTGGGA
genomic: GGATGTCAGCATATATGTTGTGGGGAAGGAAGAGTATGATGAACTTGCTTgtacgtattc ... ttttctccagTGTCAGAAGTGATCTTTGTGATAACCTCAGCTGTGAAGGATGTATGTGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctattaagtgttttacatcaacagtactatttactaatattttgtttttctccagTGTCAGAAGTGATCTTTGTGATAACCTCAGCTGTGAAGGATGTATGTGGGAAGCCCCCAAGTGAACGTCTTTTCCTGGATAAATATGGAAGAATTTGTTT
                               tactaat  putative branch site (score: 1)
                                     tattttgtttttctcc  CT-rich tract
                      agtactatttactaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acatattgtgatttcacccagagctgaaaaatgaatgttctagagctattaagtgttttacatcaacagtactatttactaatattttgtttttctccagTGTCAGAAGTGATCTTTGTGATAACCTCAGCTGTGAAGGATGTATGTGGGAAGCCCCCAAGTGAACGTCTTTTCCTGGATAAATATGGAAGAATTTGTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - ttcaccc
- - - - - - - - - - -agctgaa
- - - - - - - - - - - - - - - -tgaatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catcaac