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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttatagttcaatctgcatatgaaaaagatgctggaatgaaaaatgacgtttttattgaacaatttttcttttatttacccacatgtttctccatccagAAACGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTTAGGAGCTACAAGGGTTTGATGGTTGCAGAAAATATGACATCCAACAAAC

Basic information

species Glycine max
transcript GLYMA06G08640.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G08640.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0008g03810.t01 (Vitis vinifera), 3'ss of exon 5
gtttatagttcaatctgcatatgaaaaagatgctgg-aatgaaaaatgacgtttttattgaacaatttttcttttatttacccacatgtttc-tccatccagAAACGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTTAGGAGCTACAAGGGTTTGATGGTTGCAGAAAATATGACATCCAACAAAC
    ||  ||     |  ||   || |  || ||   ||||||  |||||   ||  |    |  |  ||||  | |  |    | |  ||  |  || ||||||||  | || ||| |||||||||||||||| |||| |||| ||||| | |||||||||||||||||||||||  | ||||| ||||| || |||||||
-cacatgctttctgata-attcaaatattatacttataatgaattatgactgcttactcattccttcattctgatttaaatgtgcttaattaattgatgcagAAACGTAGGGAAGAAATGGAAAGGCTTGAAAAAGAGAGACAAGCAGAGATAAGGAGCTACAAGGGTTTGATGGTCTCTGAAAAGATGACTTCTAACAAAC
















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|120534483|gb|EH262616.1|EH262616
EST:     CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGNNNNN                         NNNCGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTT
genomic: CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGAAAAAgtgtgtattg ... ctccatccagAAACGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTT
EST: gi|151411303|gb|EV281114.1|EV281114
EST:     CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGNNNNN                         NN-CGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTT
genomic: CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGAAAAAgtgtgtattg ... ctccatccagAAACGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTT
EST: gi|151412239|gb|EV282051.1|EV282051
EST:     CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGNNNNN                         NN-CGCCGTGAGGAATTGGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCT
genomic: CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGAAAAAgtgtgtattg ... ctccatccagAAACGCCGTGAGGAATTGG-AAAGGCTTGAAAAGGAGAAACAAACAGAGCT
EST: gi|58016161|gb|CX702903.1|CX702903
EST:     CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGNNNNN                         NNNCGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTT
genomic: CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGAAAAAgtgtgtattg ... ctccatccagAAACGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTT
EST: gi|151394766|gb|EV264637.1|EV264637
EST:     CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAGCAACTGAGAGNNNNN                         NNNCGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTT
genomic: CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGAAAAAgtgtgtattg ... ctccatccagAAACGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTT
EST: gi|58015274|gb|CX702016.1|CX702016
EST:     CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGNNNNN                         NNNCGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTT
genomic: CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGAAAAAgtgtgtattg ... ctccatccagAAACGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTT
EST: gi|298184733|gb|HO029946.1|HO029946
EST:     CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGNNNNN                         NNNCGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTT
genomic: CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGAAAAAgtgtgtattg ... ctccatccagAAACGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTT
EST: gi|120534643|gb|EH262776.1|EH262776
EST:     CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGNNNNN                         NNNCGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTT
genomic: CAGTCGGTGCAGCTGAGAGAGCTGAGAGGAAACAACAACTGAGAGAAAAAgtgtgtattg ... ctccatccagAAACGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgacgtttttattgaacaatttttcttttatttacccacatgtttctccatccagAAACGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTTAGGAGCTACAAGGGTTTGATGGTTGCAGAAAATATGACATCCAACAAAC
                                          tttctccatcc  CT-rich tract
     tttttattgaacaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttatagttcaatctgcatatgaaaaagatgctggaatgaaaaatgacgtttttattgaacaatttttcttttatttacccacatgtttctccatccagAAACGCCGTGAGGAATTGGAAAGGCTTGAAAAGGAGAAACAAACAGAGCTTAGGAGCTACAAGGGTTTGATGGTTGCAGAAAATATGACATCCAACAAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - -tgcatat
- - - - - - - - - - - -aaaaaga
- - - - - - - - - - - - - - - tgctgga
- - - - - - - - - - - - - - - - - - - -gaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgttt