Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatcatatcatgctcatggccatgagtttttagtttttcatatctaatagatttggttgcctttttcctccattttgtttattggatttcatgtttttagTCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGGTGAAAGTTACTATAACCCGGGTGGGCATGGACGCCGTCATGGTCGTGGACGTGGTGCAAGAG

Basic information

species Glycine max
transcript GLYMA20G39080.1
intron # 6
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|120491229|gb|EH219396.1|EH219396
EST:     ATAAGGACAAGCGCAGAGAGACTCTTGAGAAGGAAGATAAATCCAAAAAG                         TCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGGTGAAAGTTACTAT
genomic: ATAAGGACAAGCGCAGAGAGACTCTTGAGAAGGAAGATAAATCCAAAAAGgtgtgactta ... atgtttttagTCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGGTGAAAGTTACTAT
EST: gi|193367957|gb|FK333021.1|FK333021
EST:     ATAAGGACAAGCGCAGAGAGACTCTTGAGAAGGAAGATAAATCCAAAAAG                         TCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGGTGAAAGTTACTAT
genomic: ATAAGGACAAGCGCAGAGAGACTCTTGAGAAGGAAGATAAATCCAAAAAGgtgtgactta ... atgtttttagTCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGGTGAAAGTTACTAT
EST: gi|6481724|gb|AW200995.1|AW200995
EST:     ATAAGGACAAGCGCAGAGAGACTCTTGAGAAGGAAGATAAATCCAAAAAG                         TCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGGTGAAAGTTACTAT
genomic: ATAAGGACAAGCGCAGAGAGACTCTTGAGAAGGAAGATAAATCCAAAAAGgtgtgactta ... atgtttttagTCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGGTGAAAGTTACTAT
EST: gi|31307409|gb|CD392612.1|CD392612
EST:     ATAAGGACAAGCGCAGAGAGACTCTTGAGAAGGAAGATAAATCCAAAAAG                         TCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGGTGAAAGTTACTAT
genomic: ATAAGGACAAGCGCAGAGAGACTCTTGAGAAGGAAGATAAATCCAAAAAGgtgtgactta ... atgtttttagTCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGGTGAAAGTTACTAT
EST: gi|6454768|gb|AW185451.1|AW185451
EST:     ATAAGGACAAGCGCAGAGAGACTCTTGAGAAGGAAGATAAATCCAAAAAG                         TCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGGTGAAAGTTACTAT
genomic: ATAAGGACAAGCGCAGAGAGACTCTTGAGAAGGAAGATAAATCCAAAAAGgtgtgactta ... atgtttttagTCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGGTGAAAGTTACTAT
EST: gi|10843741|gb|BF067004.1|BF067004
EST:     TAAGGACAAGCGCAGAGAGACTCTTGAGAAGGAAGATANAATCCAAAA-G                         TCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGGGTGAA-GTTACTA
genomic: TAAGGACAAGCGCAGAGAGACTCTTGAGAAGGAAGATA-AATCCAAAAAGgtgtgactta ... atgtttttagTCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGG-TGAAAGTTACTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatagatttggttgcctttttcctccattttgtttattggatttcatgtttttagTCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGGTGAAAGTTACTATAACCCGGGTGGGCATGGACGCCGTCATGGTCGTGGACGTGGTGCAAGAG
 atctaat  putative branch site (score: 3)
                                              tgttttt  putative PPT
                                        atttcatgttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatcatatcatgctcatggccatgagtttttagtttttcatatctaatagatttggttgcctttttcctccattttgtttattggatttcatgtttttagTCTGTCAACATCAATGAGTTTCTGAAGTCCCCAGAGGGTGAAAGTTACTATAACCCGGGTGGGCATGGACGCCGTCATGGTCGTGGACGTGGTGCAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - catgctc
- - - - - - - - - gccatga