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'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaattaacctttgccttcctgctagaggatcaagagtttgaagttccctgtttattagctattttttaaatctgaaaaattctctatcaactctaaccaggaaagtttttttttttttttttatcatttttag

Basic information

species Glycine max
transcript GLYMA16G32960.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G32960.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv16s0022g01770.t01 (Vitis vinifera), 5'ss of exon 13
CGTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaat-taacctttgccttcctgctagaggatcaagagtttgaagttccctgtttattagctattttttaaatctgaaaaattctctatcaactctaaccaggaaagtttttttttttttttttatcatttttag
|||||||||||||||||||||||||||||||||||||||||||| |||||||||  | | || |     ||||||||  | |   |||  | |    || |||     |    |     | | || |     | |||   |      |    ||                                 
CGTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTATTGAAGgtagttgtcacttcctttttcctgcttaaag---aaggatatatccttacctaggattgccatgcacatcatatttagtctaatcttagtgtttgtttgttag---------------------------------
















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|16996761|gb|BM086133.1|BM086133
EST:     GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAG                         GTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
genomic: GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaattaac ... tcatttttagGTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
EST: gi|58014968|gb|CX701710.1|CX701710
EST:     GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAG                         GTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
genomic: GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaattaac ... tcatttttagGTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
EST: gi|254343119|gb|GR859281.1|GR859281
EST:     GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAG                         GTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
genomic: GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaattaac ... tcatttttagGTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
EST: gi|57574275|gb|CX547250.1|CX547250
EST:     GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAG                         GTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
genomic: GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaattaac ... tcatttttagGTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
EST: gi|254320423|gb|GR826872.1|GR826872
EST:     TGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTTCTGTTGAAG                         GTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
genomic: TGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCC-TTCTGTTGAAGgtaaattaac ... tcatttttagGTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
EST: gi|58021375|gb|CX708116.1|CX708116
EST:     GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAG                         GTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
genomic: GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaattaac ... tcatttttagGTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
EST: gi|10254318|gb|BE822084.1|BE822084
EST:     GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAG                         GTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
genomic: GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaattaac ... tcatttttagGTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
EST: gi|16343634|gb|BI969229.1|BI969229
EST:     GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAG                         GTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
genomic: GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaattaac ... tcatttttagGTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
EST: gi|7588392|gb|AW704189.1|AW704189
EST:     GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAG                         GTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
genomic: GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaattaac ... tcatttttagGTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
EST: gi|254329397|gb|GR838950.1|GR838950
EST:     GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAG                         GTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
genomic: GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaattaac ... tcatttttagGTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
EST: gi|58020394|gb|CX707136.1|CX707136
EST:     GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAG                         GTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
genomic: GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaattaac ... tcatttttagGTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
EST: gi|151408704|gb|EV278512.1|EV278512
EST:     GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAG                         GTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
genomic: GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaattaac ... tcatttttagGTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
EST: gi|254329396|gb|GR838949.1|GR838949
EST:     GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAG                         GTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT
genomic: GTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaattaac ... tcatttttagGTGAATCAAATTGGTAGTGTAACTGAAAGTATTGAAGCTGTGAGAATGTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGTGTGGAGAAAGCAATCAAGGAGAAGGCTTGCAATGCCCTTCTGTTGAAGgtaaattaacctttgccttcctgctagaggatcaagagtttgaagttccctgtttattagctattttttaaatctgaaaaattctctatcaactctaaccaggaaagtttttttttttttttttatcatttttag

-  GTGGAG
- - TGGAGA
- -  GGAGAA
- - - - - AAGCAA
- - - - - - - - - AAGGAG
- - - - - - - - -  AGGAGA
- - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - -  TTGAAG