Skip to another splice site:
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 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

gtcttagtaccctactaccctttatttttcatcattgttttttgtttacaatttctgtttttgtttcacagttcagAGAGTCAGGCTGTGAGAACTGCTCATTCTTTAAGATGGAAGAAGATCACGAGCGTGTTGTTGATTGCACTACTCCCAATTTTAATGG

Basic information

species Glycine max
transcript GLYMA17G00250.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G00250.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv10s0071g01040.t01 (Vitis vinifera), 3'ss of exon 1
------------------------gtcttagtaccctactaccctttatttttcatcattgttttttgtt-tacaat--------ttctgtttttgtttcacagttcagAGAGTCAGGCTGTGAGAACTGCTCATTCTTTAAGATGGAAGAAGATCACGAGCGTGTTGTTGATTGCACTACTCCCAATTTTAATGG
                         ||| || |   ||   |||||  ||||||||||   |||  | || |||||         || || ||||||| | ||||||||||||||||||||||| || ||| | |||||||||||||| ||||| || ||||||||||| |||||||||||||| |||||||||||
gtctttcctttttctctgtttggtttctcag-agagtaaagcccttcctttttcatcaggctttgatattatacaaaaaaacgggttttgcttttgttccgcagTTCAGAGAGTCAGGCTGTGAAAATTGCCCCTTCTTTAAGATGGATGAAGACCATGAGCGTGTTGTCGATTGCACTACTCCTAATTTTAATGG
















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|15286015|gb|BI469906.1|BI469906
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGTCGCCTTGTCAAAACCTATGATCAGTTCAG                     
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATG---A--TCAGgtcttagtac ... cacagt
EST: gi|151409763|gb|EV279571.1|EV279571
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGTTCAG                     
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATG---A--TCAGgtcttagtac ... cacagt
EST: gi|192326423|gb|FK015925.1|FK015925
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGTTCAG                     
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATG---A--TCAGgtcttagtac ... cacagt
EST: gi|298194297|gb|HO040945.1|HO040945
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAG                         T
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGgtcttagtac ... cacagttcag-
EST: gi|298194297|gb|HO040945.1|HO040945
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAG                         T
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGgtcttagtac ... cacagttcag-
EST: gi|298194297|gb|HO040945.1|HO040945
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAG                         T
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGgtcttagtac ... cacagttcag-
EST: gi|298194297|gb|HO040945.1|HO040945
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAG                         T
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGgtcttagtac ... cacagttcag-
EST: gi|298166707|gb|HO010146.1|HO010146
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGTTCAG                     
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATG---A--TCAGgtcttagtac ... cacagt
EST: gi|4396313|gb|AI495310.1|AI495310
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAG                         AGAGTCAGGCTGTGAGAACTGCTCATTCTTTAAGATGGAAGAAGATCACGA
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGgtcttagtac ... cacagttcagAGAGTCAGGCTGTGAGAACTGCTCATTCTTTAAGATGGAAGAAGATCACGA
EST: gi|254326666|gb|GR832818.1|GR832818
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGTTCAG                     
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATG---A--TCAGgtcttagtac ... cacagt
EST: gi|298178229|gb|HO023964.1|HO023964
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAG                         T
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGgtcttagtac ... cacagttcag-
EST: gi|298178229|gb|HO023964.1|HO023964
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAG                         T
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGgtcttagtac ... cacagttcag-
EST: gi|298178229|gb|HO023964.1|HO023964
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAG                         T
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGgtcttagtac ... cacagttcag-
EST: gi|298178229|gb|HO023964.1|HO023964
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAG                         T
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGgtcttagtac ... cacagttcag-
EST: gi|7795909|gb|AW781306.1|AW781306
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGTTCAG                     
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATG---A--TCAGgtcttagtac ... cacagt
EST: gi|298184274|gb|HO029487.1|HO029487
EST:     ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATGATCAGTTCAG                     
genomic: ATGAGTTGAGGGCTTGTCTTCGTTGCCGCCTTGTCAAAACCTATG---A--TCAGgtcttagtac ... cacagt


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatttttcatcattgttttttgtttacaatttctgtttttgtttcacagttcagAGAGTCAGGCTGTGAGAACTGCTCATTCTTTAAGATGGAAGAAGATCACGAGCGTGTTGTTGATTGCACTACTCCCAATTTTAATGG
                              tttctgtttttgtttc  CT-rich tract
            attgttttttgtttac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcttagtaccctactaccctttatttttcatcattgttttttgtttacaatttctgtttttgtttcacagttcagAGAGTCAGGCTGTGAGAACTGCTCATTCTTTAAGATGGAAGAAGATCACGAGCGTGTTGTTGATTGCACTACTCCCAATTTTAATGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA