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

gtagatacttaaaagtagtagctgaagttgcatttcttgctgattgagaatttataagctgttcctatttttctagggggtgggggagggagagaagggggaaggtgtatcctttagatatcttttaattttcactgacacactgcatgattattcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTG

Basic information

species Glycine max
transcript GLYMA16G27010.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G27010.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g07290.t01 (Vitis vinifera), 3'ss of exon 3
gtagatacttaaaagtagtagctgaagttgcatttcttgctgattgagaat-----ttataagctgttcctatttttctagggggtgggggagggag---agaagggggaaggtgtatcctttagatatcttttaattttcactgacacactgcatgattattcttctga---agGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTG
||| | | || ||  |    | || | || | ||  |  || ||| |  ||     ||||    | ||  |   || ||      |     |        |||||    || || |    || |     |  |  ||| |   | ||   ||| ||||   ||||| ||    |||| |||||||| |||||||||||||| ||||| ||  |||||||||| || || |||||||| || ||||| || |||
gtaaacatttgaatctttctg-tgcattttctttcttgtctaattaatgatattttttattccttatttttcacttcctttttattacataattatcttcagaagctaaaatgtatgaaattcaa----ccctagattgtggttaac---ctgaatgaaatttcttatgtgtcagGATTCTGCTAATTGCAATGGTGGTAAGTGGATAATTAGATTCAAAAAAGTCGTGTCAGGTCGCTTCTGGGAAGATCTG
















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|151402667|gb|EV272480.1|EV272480
EST:     GTCCGACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|8283787|gb|BE021346.1|BE021346
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|298169920|gb|HO018544.1|HO018544
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|209710160|gb|BW681072.1|BW681072
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|37997491|gb|CF809080.1|CF809080
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|58021292|gb|CX708033.1|CX708033
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|193642243|gb|FK587203.1|FK587203
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|192299481|gb|FG990790.1|FG990790
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|298187572|gb|HO034721.1|HO034721
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|298171093|gb|HO016125.1|HO016125
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAGTGGTGGTAAATGGATTATACGAT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGAT
EST: gi|151394261|gb|EV264132.1|EV264132
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|298180018|gb|HO025233.1|HO025233
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|7478427|gb|AW666261.1|AW666261
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|192295554|gb|FG988128.1|FG988128
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|14991741|gb|BI317414.1|BI317414
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|17022976|gb|BM094010.1|BM094010
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|192305689|gb|FG998039.1|FG998039
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|298193673|gb|HO040321.1|HO040321
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATGCGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|37995997|gb|CF807586.1|CF807586
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|19269428|gb|BM885684.1|BM885684
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|37994217|gb|CF805963.1|CF805963
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|58020447|gb|CX707189.1|CX707189
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|21677127|gb|BQ629478.1|BQ629478
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|58017961|gb|CX704703.1|CX704703
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|298166699|gb|HO010138.1|HO010138
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTC
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTC
EST: gi|19346443|gb|BM891323.1|BM891323
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|31464192|gb|CD406220.1|CD406220
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTGCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|13789026|gb|BG651617.1|BG651617
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|4397610|gb|AI496607.1|AI496607
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCCAAAAA
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTC-AAAAA
EST: gi|57575959|gb|CX548930.1|CX548930
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|254329998|gb|GR839551.1|GR839551
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|192326201|gb|FK016288.1|FK016288
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTC
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTC
EST: gi|213611709|gb|DB960637.1|DB960637
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
EST: gi|151413065|gb|EV282873.1|EV282873
EST:     GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAG                         GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT
genomic: GTCCAACAGATTTGCACCTTTTCAAGGAAGGAATCCGTCCTCTATGGGAGgtagatactt ... tcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctttagatatcttttaattttcactgacacactgcatgattattcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTG
                       cactgac  putative branch site (score: 2)
                                         ttattcttct  putative PPT
     tagatatcttttaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagatacttaaaagtagtagctgaagttgcatttcttgctgattgagaatttataagctgttcctatttttctagggggtgggggagggagagaagggggaaggtgtatcctttagatatcttttaattttcactgacacactgcatgattattcttctgaagGACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA