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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaatcttattacttcaatttcaatgtgctcctccaatctctatgttggttgctcacttggaatttcttctgacacctcttttttttacttgtggtgaagATGGTATTTTGCTGCTAGAAGTTAATAGGATGCTAAGGGCAGGAGGGTACTTTGTTTGGGCTGCCCAACCGGTTTATAAACATGAGGAAGTTTTAGAAGA

Basic information

species Glycine max
transcript GLYMA14G07190.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G07190.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G092120_T02 (Zea mays), 3'ss of exon 3
taaatcttattacttcaatttcaatgtgctcctccaatctctatgttggttgctcacttg---gaatttcttctgacacctcttttttttacttgtggtgaagATGGTATTTTGCTGCTAGAAGTTAATAGGATGCTAAGGGCAGGAGGGTACTTTGTTTGGGCTGCCCAACCGGTTTATAAACATGAGGAAGTTTTAGAAGA
    || | | |  |  || |||| |   |   |   | |||||||   || |  | |||    | |||  |        | |  | |||  || |  ||||||||||||  |||| || || ||||||||  |||| || || ||||| ||||||| |||||| |||||||| |||||||| ||||| || |    | ||||
--tttcatttaaacttgatctcaaaggtatgtgcacttatctatgtactttccaaatttgcctaagttttgtacttttgttatcatatttgtttatt-tgaagATGGTATCCTGCTCCTGGAGGTTAATAGATTGCTTAGAGCTGGAGGCTACTTTGCTTGGGCAGCCCAACCTGTTTATAAGCATGAAGAGGCCCAACAAGA
















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|193403178|gb|FK367640.1|FK367640
EST:     CTGTAGAATTAATTTGGACTTCGAGATG                         ATGGTATTTTGCTGCTAGAAGTTAATAGGATGCTAAGGGCAGGAGGGTAC
genomic: CTGTAGAATTAA-TTGGAC-TCGAGATGgtatgatctc ... tgtggtgaagATGGTATTTTGCTGCTAGAAGTTAATAGGATGCTAAGGGCAGGAGGGTAC
EST: gi|7691852|gb|AW759971.1|AW759971
EST:     TTTTGACTTGATACATTGTTCACGCTGTAGAATTAATTGGACTCGAGATG                         ATGGTATTTTGCTGCTAGAAGTTAATAGGATGCTAAGGGCAGGAGGGTACT
genomic: TTTTGACTTGATACATTGTTCACGCTGTAGAATTAATTGGACTCGAGATGgtatgatctc ... tgtggtgaagATGGTATTTTGCTGCTAGAAGTTAATAGGATGCTAAGGGCAGGAGGGTACT
EST: gi|14126212|gb|BG790650.1|BG790650
EST:     TTTTGACTTGATACATTGTTCACGCTGTAGAATTAATTGGACTCGAGATG                         ATGGTATTTTGCTGCTAGAAGTTAATAGGATGCTAAGGGCAGGAGGGTACT
genomic: TTTTGACTTGATACATTGTTCACGCTGTAGAATTAATTGGACTCGAGATGgtatgatctc ... tgtggtgaagATGGTATTTTGCTGCTAGAAGTTAATAGGATGCTAAGGGCAGGAGGGTACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggttgctcacttggaatttcttctgacacctcttttttttacttgtggtgaagATGGTATTTTGCTGCTAGAAGTTAATAGGATGCTAAGGGCAGGAGGGTACTTTGTTTGGGCTGCCCAACCGGTTTATAAACATGAGGAAGTTTTAGAAGA
                      ttctgac  putative branch site (score: 2)
                  tttcttctgacacctc  CT-rich tract
                                tcttttttttactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taaatcttattacttcaatttcaatgtgctcctccaatctctatgttggttgctcacttggaatttcttctgacacctcttttttttacttgtggtgaagATGGTATTTTGCTGCTAGAAGTTAATAGGATGCTAAGGGCAGGAGGGTACTTTGTTTGGGCTGCCCAACCGGTTTATAAACATGAGGAAGTTTTAGAAGA

- - - - - - - - - - -caatgtg
- - - - - - - - - - - - - - ctcctcc
- - - - - - - - - - - - - - - - - - - - - - - tggttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - cacttgg