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'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggaatttaagaggggtttaggtgaaattatagggtgctggaagaaacagccttctctttttgttaccttgggttaacatttctcttttggtggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTAACACTGGAGAAGCTCGAGCAATTGGTCGCCAAATCATCCTGAAATTTAA

Basic information

species Glycine max
transcript GLYMA08G16770.1
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G16770.1 (Glycine max), 3'ss of exon 19
lower sequence: AT3G60100.1 (Arabidopsis thaliana), 3'ss of exon 18
ggaatttaagaggggtttaggtga--aattatagggtgctggaagaaacagccttctcttttt--gttaccttgggttaacatttctcttttggtggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTAACACTGGAGAAGCTCGAGCAATTGGTCGCCAAATCATCCTGAAATTTAA--
 | |  ||  |    || | |  |   |  ||  | |  | | |   |  ||| | || ||     | |  |  |  |||  |||   |  |  |   |||||| |||||||||||||||| |||||| ||||||| || || || || |||||||   ||||   ||||||  || |   |||    | | ||   || ||||  
-gtacatac-atacattcatgccatcgacaattcgattttagtacgtatcgccatatccttcacaataaagtcagactaatcttttattccttttctgtttcagCTGATATGGGACAGGGCACTTGGACTGCCACTTGAGAGACCAAAGAGTGTAAACATGGACTGGCTCGA-TAACTTCACGC-GCTTGAACCGCTAAGTTAATC
















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|37995119|gb|CF806708.1|CF806708
EST:     ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAG                         TTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
genomic: ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAGgtttgttatg ... tggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
EST: gi|10710148|gb|BF009872.1|BF009872
EST:     ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAG                         TTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
genomic: ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAGgtttgttatg ... tggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
EST: gi|213604400|gb|DB983488.1|DB983488
EST:     ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAG                         TTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
genomic: ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAGgtttgttatg ... tggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
EST: gi|22934201|gb|BU551340.1|BU551340
EST:     ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAG                         TTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
genomic: ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAGgtttgttatg ... tggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
EST: gi|31460126|gb|CD402154.1|CD402154
EST:     ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAG                         TTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
genomic: ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAGgtttgttatg ... tggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
EST: gi|9440345|gb|BE440851.1|BE440851
EST:     ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAG                         TTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
genomic: ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAGgtttgttatg ... tggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
EST: gi|15287775|gb|BI471666.1|BI471666
EST:     ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAG                         TTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
genomic: ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAGgtttgttatg ... tggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
EST: gi|15664905|gb|BI702276.1|BI702276
EST:     ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAG                         TTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
genomic: ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAGgtttgttatg ... tggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
EST: gi|58021230|gb|CX707972.1|CX707972
EST:     CTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAG                         TTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
genomic: CTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAGgtttgttatg ... tggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
EST: gi|9820752|gb|BE556262.1|BE556262
EST:     ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAG                         TTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
genomic: ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAGgtttgttatg ... tggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
EST: gi|23733765|gb|BU765093.1|BU765093
EST:     ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAG                         TTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
genomic: ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAGgtttgttatg ... tggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
EST: gi|58014251|gb|CX700993.1|CX700993
EST:     CTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAG                         TTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
genomic: CTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAGgtttgttatg ... tggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
EST: gi|7590989|gb|AW706731.1|AW706731
EST:     ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAG                         TTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA
genomic: ATTATACTGTTCTCTTTGGTGTATCAAGGAGCTTTGGAGTTGGCCCTCAGgtttgttatg ... tggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acagccttctctttttgttaccttgggttaacatttctcttttggtggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTAACACTGGAGAAGCTCGAGCAATTGGTCGCCAAATCATCCTGAAATTTAA
                         ggttaac  putative branch site (score: 3)
           tttttgtta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggaatttaagaggggtttaggtgaaattatagggtgctggaagaaacagccttctctttttgttaccttgggttaacatttctcttttggtggatttcagTTGATATGGGACAGGGCTCTTGGAATGCCACTCGAAAGGCCGAAAAGTGTAACACTGGAGAAGCTCGAGCAATTGGTCGCCAAATCATCCTGAAATTTAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC