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

gttagatcaggtttgccttaaaattacttgtatcatttggtaattggtacattttcttttcaaggagtaggatttgatgtcccctaatactgtgccttcattgcagGTTAAATGTTACATGCATCAGCTGTTATCAGGACTTGAGCACTGTCATAACCGTCATGTACTTCACCGTGATATTAAAGGATCAAATCTTCTTATTGACA

Basic information

species Glycine max
transcript GLYMA03G40330.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G40330.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G156251_T01 (Zea mays), 3'ss of exon 2
gttagatcaggtttgccttaaaattacttgtatcatttggtaattggtacattttcttttcaaggagta-ggatttgatgtcccctaatactgtgccttcattgcagGTTAAATGTTACATGCATCAGCTGTTATCAGGACTTGAGCACTGTCATAACCGTCATGTACTTCACCGTGATATTAAAGGATCAAATCTTCTTATTGACA
             ||  | ||| |   |||     |  | ||   |||  |||   |  |  |  | |  || |||||||||       ||| ||   || |||||| | ||||||||||| || |||||||| ||||| |||||||| |||||| ||  | ||||| | ||||| ||||| || || |||||  |  |  | || |
------------gtgtgtgaaactgggttgctgtttcagata--cggtcgattacatggtggaataatgtgggtttgatgtc-------actatgttatc-ttgcagATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGACAATAATGTATTGCACCGGGATATCAAGGGGTCAAACTTGTTGTTGGATA

upper sequence: GLYMA03G40330.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G05050.1 (Arabidopsis thaliana), 3'ss of exon 3
gttagatcaggtttgccttaaaattacttgtatcatttggtaattggtacattttcttttcaaggagtaggatttgatgtcccctaatactgtgccttcattgcagGTTAAATGTTACATGCATCAGCTGTTATCAGGACTTGAGCACTGTCATAACCGTCATGTACTTCACCGTGATATTAAAGGATCAAATCTTCTTATTGACA
                 |||    |  | ||   ||    | |    ||||   ||        |||   |||   |       ||||| ||| |  |  || ||||||||||| || ||| | || ||  | ||||| || ||||| || ||||||||    || || ||||||||||||||||||||||| |||||||| ||  
----------------gttaggcct--tggtgaaatagattcacaaatacaaaatcc-------gaggcagatcctaaccttgttaataatgt-ctatgttttcagGTTAAATGCTATATGAAGCAACTACTTTCAGGGCTCGAGCATTGCCATAACCGAGGAGTTCTACACCGTGATATTAAAGGATCAAACCTTCTTATAGATG

upper sequence: GLYMA03G40330.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G54610.1 (Arabidopsis thaliana), 3'ss of exon 3
gttagatcaggtttgccttaaaattacttgtatcatttggtaattggtacattttcttttcaaggagtaggatttgatgtcccctaatactgtgccttcattgcagGTTAAATGTTACATGCATCAGCTGTTATCAGGACTTGAGCACTGTCATAACCGTCATGTACTTCACCGTGATATTAAAGGATCAAATCTTCTTATTGACA
      | || |  || ||  | |  || | ||  |    | || ||   ||  | ||       ||| |  ||| | |  |   | |||| |   | | ||||||||||||||||  |||| |||| || |||| ||  | ||||| |||||||  |||  ||||||||| ||||| || |||||||||||||||||||||||  
-----gttagttaggcgttttagtatctcgcattctaaatttataggctaataatattc------agtcgttttttaagatcag-attactct-tttacgttgcagGTTAAATGTTTGATGCGTCAGTTGATATCTGGTTTGGAGCATTGTCATAGTCGTGGTGTACTTCATCGTGACATCAAAGGATCAAATCTTCTTATTGATG

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|15662127|gb|BI699498.1|BI699498
EST:     GTTCACAGAGCCTCAG                         GTTAAATGTTACATGCATCAGCTGTTATCAGGACTTGAGCACTGTCATAAC
genomic: GTTCACAGAGCCTCAGgttagatcag ... ttcattgcagGTTAAATGTTACATGCATCAGCTGTTATCAGGACTTGAGCACTGTCATAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcttttcaaggagtaggatttgatgtcccctaatactgtgccttcattgcagGTTAAATGTTACATGCATCAGCTGTTATCAGGACTTGAGCACTGTCATAACCGTCATGTACTTCACCGTGATATTAAAGGATCAAATCTTCTTATTGACA
                              ccctaat  putative branch site (score: 3)
                                           ccttcatt  putative PPT
     ttttcaa  TA-rich tract