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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaaggattatttaatttgattctttatctgatgtaacttactttcttcatgtctgagatatcagggtgtttaatttttcatttattttgttgttgacagCTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTTTAAAG

Basic information

species Glycine max
transcript GLYMA13G44940.1
intron # 9
splice site 3'
intron type U2

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|5175439|gb|AI759772.1|AI759772
EST:     TATATCTAGGGATGAAGTTGAAAGGGTTGTGAACACTTTCCCTAATCAAG                         CTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
genomic: TATATCTAGGGATGAAGTTGAAAGGGTTGTGAACACTTTCCCTAATCAAGgtactcacat ... ttgttgacagCTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
EST: gi|209727642|gb|BW652015.1|BW652015
EST:     TATATCTAGGGATGAAGTTGAAAGGGTTGTGAACACTTTCCCTAATCAAG                         CTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
genomic: TATATCTAGGGATGAAGTTGAAAGGGTTGTGAACACTTTCCCTAATCAAGgtactcacat ... ttgttgacagCTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
EST: gi|51342164|gb|CO983425.1|CO983425
EST:     TATATCTAGGGATGAAGTTGAAAGGGTTGTGAACACTTTCCCTAATCAAG                         CTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
genomic: TATATCTAGGGATGAAGTTGAAAGGGTTGTGAACACTTTCCCTAATCAAGgtactcacat ... ttgttgacagCTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
EST: gi|13789259|gb|BG651850.1|BG651850
EST:     TATATCTAGGGATGAAGTTGAAAGGGTTGTGAACACTTTCCCTAATCAAG                         CTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
genomic: TATATCTAGGGATGAAGTTGAAAGGGTTGTGAACACTTTCCCTAATCAAGgtactcacat ... ttgttgacagCTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
EST: gi|193403284|gb|FK369454.1|FK369454
EST:     ATATCTAGGGATGAAAGTTGAAAGGGTTGTGAACACTTTCCCTAATCAAG                         CTTTG-ACTTTTA
genomic: ATATCTAGGGATGAA-GTTGAAAGGGTTGTGAACACTTTCCCTAATCAAGgtactcacat ... ttgttgacagCTTTGGACTTTTA
EST: gi|214009438|gb|DB988621.1|DB988621
EST:     TGAAAGGGTTGTGAACACTTTCCCTAATCAAG                         CTTTGGCA-GGATCTGGAGCTCTAAGATCACGTACATATGACAGATCTATT
genomic: TGAAAGGGTTGTGAACACTTTCCCTAATCAAGgtactcacat ... ttgttgacagCTTTGG-ACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATT
EST: gi|21594248|gb|BQ610100.1|BQ610100
EST:     TGAAAGGGTTGTGAACACTTTCCCTAATCAAG                         CTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
genomic: TGAAAGGGTTGTGAACACTTTCCCTAATCAAGgtactcacat ... ttgttgacagCTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
EST: gi|7639905|gb|AW734217.1|AW734217
EST:     TATATCTAGGGATGAAGTTGAAAGGGTTGTGAACACTTTCCCTAATCAAG                         CTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
genomic: TATATCTAGGGATGAAGTTGAAAGGGTTGTGAACACTTTCCCTAATCAAGgtactcacat ... ttgttgacagCTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
EST: gi|193577182|gb|FK536587.1|FK536587
EST:     TATATCTAGGGATGAAGTTGAAAGGGTTGTGAACACTTTCCCTAATCAAG                         CTTTGGACTTTTGTGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
genomic: TATATCTAGGGATGAAGTTGAAAGGGTTGTGAACACTTTCCCTAATCAAGgtactcacat ... ttgttgacagCTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
EST: gi|7795496|gb|AW780893.1|AW780893
EST:     GGGTTGTGAACACTTTCCCTAATCAAG                         CTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT
genomic: GGGTTGTGAACACTTTCCCTAATCAAGgtactcacat ... ttgttgacagCTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcatgtctgagatatcagggtgtttaatttttcatttattttgttgttgacagCTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTTTAAAG
                       gtttaat  putative branch site (score: 4)
                                        ttttgtt  putative PPT
                      tgtttaatttttcatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taaaggattatttaatttgattctttatctgatgtaacttactttcttcatgtctgagatatcagggtgtttaatttttcatttattttgttgttgacagCTTTGGACTTTTATGGAGCTCTAAGATCACGTACATATGACAGATCTATTTTAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - -tctgatg
- - - - - - - - - - - - - - - - - - - - - - - -tcatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggtgtt