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

GTGGATATGCAGCTGGATACTATAGTTACAAGgtacattctgcattgctttaatgatgattcacatcttttgtcttgaggatcttttttggatgtgttttccacttttttttctttcataattgtggtagactcccctttcctttatagaactctccctgtccatccaatgagtggagaaagaactatttatatcttatggtgaatttgtctgttatgcag

Basic information

species Glycine max
transcript GLYMA09G33490.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G33490.1 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os02g58340.1 (Oryza sativa), 5'ss of exon 14
GTGGATATGCAGCTGGATACTATAGTTACAAGgtacatt-ctgcattgctttaatgatgattcacatcttttgtcttgaggatcttttttggatgtgttttccacttttttttctttcataattgtggtagactcccctttcctttatagaactctccctgtccatccaatgagtggagaaagaactatttatatcttatggtgaatttgtctgttatgcag
| || ||||||||||||||||| |||||||||||| ||| ||| |    |||||  |   | |    ||| |||     | || |   |  | ||    |   |  |||| |   | || |                                                                                                     
GAGGCTATGCAGCTGGATACTACAGTTACAAGgtatattgctgtaaacgtttaa-aacattacgttccttctgt----ggcatatgagtatgctgaaactagtatcttttctatgtgcacag----------------------------------------------------------------------------------------------------

upper sequence: GLYMA09G33490.1 (Glycine max), 5'ss of exon 14
lower sequence: AT5G10540.1 (Arabidopsis thaliana), 5'ss of exon 14
GTGGATATGCAGCTGGATACTATAGTTACAAGgtacattctgcattgctttaatgatgattcacatcttttgtcttgaggatcttttttggatgtgttttccacttttttttctttcataattgtggtagactcccctttcctttatagaactctccctgtccatccaatgagtggagaaagaactatttatatcttatggtgaatttgtctgttatgcag
|||| ||||||||||||||||| |||||||||||| | | |    | ||||  |    ||  |  ||     |   |  | ||| ||   |||| ||| ||  ||  |         |  ||     || |||    |   |    |  |                                                                       
GTGGTTATGCAGCTGGATACTACAGTTACAAGgtaaaatata---ttcttttgtttctatataattcaccgatgcagcagttctattcacgatg-gttctctgctggtca-------aatatctaaatacacttttgtggacaacgtgcag----------------------------------------------------------------------

upper sequence: GLYMA09G33490.1 (Glycine max), 5'ss of exon 14
lower sequence: AT5G65620.1 (Arabidopsis thaliana), 5'ss of exon 14
GTGGATATGCAGCTGGATACTATAGTTACAAGgtacattctgcattgctttaatgatgattcacatcttttgtcttgaggatcttttttggatgtgttttccacttttttttctttcataattgtggtagactcccctttcctttatagaactctccctgtccatccaatgagtggagaaagaactatttatatcttatggtgaatttgtctgttatgcag
| ||||||||||||||||| || |||||||||||| |||    | |   || ||  |   | ||    | |||    |   |||   |   ||   | |   |    |   | |   | | |||  |                                                                                              
GGGGATATGCAGCTGGATATTACAGTTACAAGgtaaatttgaaaatctctttatacta--taaccgactctgt----aaattctcactcaaata--tctaaaaaaactggatgtgaaaaacttgcag----------------------------------------------------------------------------------------------

upper sequence: GLYMA09G33490.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv00s0211g00060.t01 (Vitis vinifera), 5'ss of exon 17
GTGGATATGCAGCTGGATACTATAGTTACAAGgta-cattctgcattgctttaatgatgattcacat-----cttttgtcttgaggatcttttttggatgtgttttccacttttttttctttcataattgtggtagactcccctttcctttatagaactctccctgtccatccaatgagtggagaaagaactatttatatcttatggtgaatttgtctgttatgcag
||||||| |||||||||||||||||||||||||||  |||    |    |||  |  |  |||   |     ||||  |||||    |  |   ||||| ||  ||  | || ||| | |    |  ||||                                                                                                
GTGGATACGCAGCTGGATACTATAGTTACAAGgtaatatttcttacctttttttttttttttcctgtagttcctttcttcttggaagtgatgggtggatttggcttggatttatttctgtaat-tggttgtca----------------------------------------------------------------------------------------------

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|19345902|gb|BM890782.1|BM890782
EST:     GTGGATATGCAGCTGGATACTATAGTTACAAG                         TGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
genomic: GTGGATATGCAGCTGGATACTATAGTTACAAGgtacattctg ... tgttatgcagTGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
EST: gi|17963650|gb|BM270397.1|BM270397
EST:     GTGGATATGCAGCTGGATACTATAGTTACAAG                         TGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
genomic: GTGGATATGCAGCTGGATACTATAGTTACAAGgtacattctg ... tgttatgcagTGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
EST: gi|193731702|gb|FK667544.1|FK667544
EST:     GCTGGATACTATAGTTACAAG                         TGGGCTGAGGTGCTGTCTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGA
genomic: GCTGGATACTATAGTTACAAGgtacattctg ... tgttatgcagTGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
EST: gi|193548022|gb|FK505191.1|FK505191
EST:     GCTGGATACTATAGTTACAAG                         TGGGCTGAGGTGCTGTCTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGA
genomic: GCTGGATACTATAGTTACAAGgtacattctg ... tgttatgcagTGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
EST: gi|15589634|gb|BI674250.1|BI674250
EST:     GTGGATATGCAGCTGGATACTATAGTTACAAG                         TGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
genomic: GTGGATATGCAGCTGGATACTATAGTTACAAGgtacattctg ... tgttatgcagTGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
EST: gi|193527255|gb|FK483409.1|FK483409
EST:     GCTGGATACTATAGTTACAAG                         TGGGCTGAGGTGCTGTCTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGA
genomic: GCTGGATACTATAGTTACAAGgtacattctg ... tgttatgcagTGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
EST: gi|254348574|gb|GR852253.1|GR852253
EST:     GTGGATATGCAGCTGGATACTATAGTTACAAG                         TGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
genomic: GTGGATATGCAGCTGGATACTATAGTTACAAGgtacattctg ... tgttatgcagTGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
EST: gi|207715848|gb|GD697966.1|GD697966
EST:     GTGGATATGCAGCTGGATACTATAGTTACAAG                         TGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
genomic: GTGGATATGCAGCTGGATACTATAGTTACAAGgtacattctg ... tgttatgcagTGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
EST: gi|193624092|gb|FK573916.1|FK573916
EST:     GCTGGATACTATTAGTTACAAG                         TGGGCTGAGGTGCTGTCTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGA
genomic: GCTGGATACTA-TAGTTACAAGgtacattctg ... tgttatgcagTGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
EST: gi|21889700|gb|BQ742913.1|BQ742913
EST:     GTGGATATGCGGCTGGATACTATAGTTACAAG                         TGGGCTGAGGTGCTGTCTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGA
genomic: GTGGATATGCAGCTGGATACTATAGTTACAAGgtacattctg ... tgttatgcagTGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA
EST: gi|193649185|gb|FK599794.1|FK599794
EST:     GCTGGATACTATAGTTACAAG                         TGGGCTGAGGTGCTGTCTGCTGATGCTTTCTCTGCATTTGAGGATGCTGGA
genomic: GCTGGATACTATAGTTACAAGgtacattctg ... tgttatgcagTGGGCTGAGGTGCTGTCTGCAGATGCTTTCTCTGCATTTGAGGATGCTGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGGATATGCAGCTGGATACTATAGTTACAAGgtacattctgcattgctttaatgatgattcacatcttttgtcttgaggatcttttttggatgtgttttccacttttttttctttcataattgtggtagactcccctttcctttatagaactctccctgtccatccaatgagtggagaaagaactatttatatcttatggtgaatttgtctgttatgcag

- - - - GCAGCT
- - - -  CAGCTG
- - - - -  GCTGGA