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

gtatgttaaaaatttggttaggaagcttgagatatttgttggaaatcattttcaaaaactcctagctaacatggctccatagttgggcagggtagtgggattttgtggctgtgatgaaaattgttttttgttgttgtcatgaagcggtttgaatgacatgtttctttattttttggttttggtaaaacagAACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGGTCCCATCCTATCTCCAACCTGATAAAGAACCTGATTTGGATGCAGAACT

Basic information

species Glycine max
transcript GLYMA10G33960.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G33960.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G10640.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgttaaaaatttggttaggaagcttgagatatttgttggaaatcattttcaaaaactcctagctaacatggctccatagttgggcagggtagtgggattttgtggctgtgatgaaaattgttttttgttgttgtcatgaagcggtttgaatgacatgtttctttattttttggttttggtaaaacagAACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGGTCCCATCCTATCTCCAACCTGATAAAGAACCTGATTTGGATGCAGAACT
                                                                                              ||    |  |     ||| ||   ||  ||||    |   |  | ||   || | ||  |  |   | || ||    ||   ||    ||   |||| ||||| ||  | |||   ||||||||||| ||||| ||||| |||||  | || || |||||||||||||||| |||| ||||||  |||   || ||
----------------------------------------------------------------------------------------------gtaaagtgcttgttttgtaattggaa--gtttaagatcaatcgcttgctacgctatgcgtctctcatatcatttacattcttttgatatatttcagAGCTTGATGCTCTTGAAGCTGACATGGGAAACGAGACCGAAGCAGATGGAATGCCTTCTTATCTCCAACCTGATACAGAAACTGATTACGATAGCGAGCT

upper sequence: GLYMA10G33960.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0007g02300.t01 (Vitis vinifera), 3'ss of exon 5
gtatgttaaaaatttggttaggaagcttgagatatttgttggaaatcattttcaaaaactcctagctaacatggctccatagttgggcagggtagtgggattttgtggctgtgatgaaaattgttttttgttgttgtcatgaagcggtttgaatgacatgtttctttattttttggttttggtaaaacagAACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGGTCCCATCCTATCTCCAACCTGATAAAGAACCTGATTTGGATGCAGAACT
||||| | ||| | |  | |     | ||  |  ||     | |||   |   || |     | ||  |  |   ||  ||     ||  |  |   || |       | |  |  |   || |      || || | ||      | || | ||   | | ||  | ||||||    |        |||| ||||| || ||||||  |||||||||||  ||||||||  |    || || ||  ||||||| ||||||||||| |||||||||||||||||||||||
gtatgcttaaattgtattcatatgtcatggaacttt-----ggaatggatgctaagagaatgttgc--attttcttcagtatccttgcttgtcacgagggt-------cagcaa--agggttctccccccttcttttaattttatagatttattgttttatgtccctcttttttcccct-------gcagAGCTTGATGCCTTGGAAGCAGACATGGGAATGGAGACTGAGTCCACAGGAGTGCCTGCCTATCTTCAACCTGATAAGGAACCTGATTTGGATGCAGAACT
















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|151406319|gb|EV276134.1|EV276134
EST:     TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTG                         AACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGG
genomic: TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTGgtatgttaaa ... ggtaaaacagAACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGG
EST: gi|208119277|gb|GD916552.1|GD916552
EST:     TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTG                         AACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGG
genomic: TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTGgtatgttaaa ... ggtaaaacagAACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGG
EST: gi|192308429|gb|FK000925.1|FK000925
EST:     TAGAAGCTATAAGGTGCCTGATGACATTGACGAGGATGATCTTATGGGTG                         AACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGG
genomic: TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTGgtatgttaaa ... ggtaaaacagAACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGG
EST: gi|208168350|gb|GD966870.1|GD966870
EST:     TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTG                         AACTTGACGCATTGGAATTAGACATGGGAAATGAGA
genomic: TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTGgtatgttaaa ... ggtaaaacagAACTTGACGCATTGGAATTAGACATGGGAAATGAGA
EST: gi|208156779|gb|GD957285.1|GD957285
EST:     TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTG                         AACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGG
genomic: TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTGgtatgttaaa ... ggtaaaacagAACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGG
EST: gi|193714928|gb|FK651621.1|FK651621
EST:     TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTG                         AACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGG
genomic: TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTGgtatgttaaa ... ggtaaaacagAACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGG
EST: gi|208331778|gb|GE130657.1|GE130657
EST:     TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTG                         AACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGG
genomic: TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTGgtatgttaaa ... ggtaaaacagAACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGG
EST: gi|151406062|gb|EV275877.1|EV275877
EST:     TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTG                         AACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGG
genomic: TAGAAGCTATAATGTGCCTGATGACATTGACGAGGATGATCTTATGGGTGgtatgttaaa ... ggtaaaacagAACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcatgaagcggtttgaatgacatgtttctttattttttggttttggtaaaacagAACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGGTCCCATCCTATCTCCAACCTGATAAAGAACCTGATTTGGATGCAGAACT
                      atgtttctttattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttaaaaatttggttaggaagcttgagatatttgttggaaatcattttcaaaaactcctagctaacatggctccatagttgggcagggtagtgggattttgtggctgtgatgaaaattgttttttgttgttgtcatgaagcggtttgaatgacatgtttctttattttttggttttggtaaaacagAACTTGACGCATTGGAATTAGACATGGGAAATGAGACTGAAGCTGATGGGGTCCCATCCTATCTCCAACCTGATAAAGAACCTGATTTGGATGCAGAACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC