Skip to another splice site:
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 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

...ttggaacaccaatattattatatctgatgcatggatttattcttttgacattcaagggtatctatctcgtcagtggctgatgttaacattcctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGGAAGCGGCTCTATGCTACCAACTCACTATTTAGTACTTGGGACAAACAAT

Basic information

species Glycine max
transcript GLYMA18G00590.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G00590.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv05s0029g00240.t01 (Vitis vinifera), 3'ss of exon 6
ttggaacaccaatattattatatctgatgcatggatttattcttt--tgacattcaagggtatctatctcgtca-gtggctga-tgttaacattcctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGGAAGCGGCTCTATGCTACCAACTCACTATTTAGTACTTGGGACAAACAAT
    |  | | |  | ||   || ||   |||  ||||  |  ||  ||| | |  ||      |   | | ||  |   | | ||     || |  |||||||||||| | |||| ||||||| ||||| ||||| || || |||||||||||||||||||| |||| |||||||||||| || ||||| |||||  | || |
--ccattatctaattcatggcatgtg--tcataaatttggtggttgctgagaattgagaacccttgaattgccatataaataaatgacttgatcctgttttcagGGAAAAAGGTTGCGAGGGGGACCTCAAATGATCCAGTTAAGTTTAGATGGGAAGCGGCTTTATGTTACCAACTCACTCTTCAGTACATGGGATCACCAGT

upper sequence: GLYMA18G00590.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S11_387V6.1 (Physcomitrella patens), 3'ss of exon 7
-------ttg-gaacaccaatattattatatctgatgcatggatttattcttttgacattcaagggtatctatctcgtcagtggctgatgttaacattcctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGGAAGCGGCTCTATGCTACCAACTCACTATTTAGTACTTGGGACAAACAAT
       | | |||  | || | | |||  | ||       ||   ||   |   | | |  |    | | | ||  | |   | || || |    ||   |    |||| |   |||||||||| ||||| ||||||||||| ||||| || || ||||||||  | ||||   | ||||| || || ||| | |||||||| || |
tccgtcgtcgtgaagtcaaagagttttacttatggcattgagaagcatcagtaaaatagttgaa---accca-cttattatatgttggtggtggtgttgaat----agGGGACGGAGTTGAGAGGCGGCCCGCAGATGATTCAGTTGAGCTTGGACGGGAAGCGATTGTATGTCTCAAACTCGCTCTTCAGTGCATGGGACAATCAGT
















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|214008724|gb|DB989582.1|DB989582
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|213598183|gb|DB979859.1|DB979859
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|308098167|gb|HO761338.1|HO761338
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|254343360|gb|GR857064.1|GR857064
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|213592429|gb|DB983093.1|DB983093
EST:     TATAACTGATGATGGCT-AAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: TATAACTGATGATGG-TGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|6454871|gb|AW185620.1|AW185620
EST:     CTATGACTGATGATGGTGATACATGGCAAGCTGAAGTTCCACAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|6072260|gb|AW101647.1|AW101647
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|22930562|gb|BU547701.1|BU547701
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|10847443|gb|BF070130.1|BF070130
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTNTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|193371941|gb|FK334164.1|FK334164
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAG-TCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGA-GGGGGCCCTCAGATGATTCAATTGAGTTTAGATGG
EST: gi|209712695|gb|BW684625.1|BW684625
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|7458575|gb|AW666025.1|AW666025
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|207727252|gb|GD700864.1|GD700864
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|254347237|gb|GR853486.1|GR853486
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|11413376|gb|BF425387.1|BF425387
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|22928395|gb|BU545534.1|BU545534
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|192328285|gb|FK022919.1|FK022919
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|213605527|gb|DB974270.1|DB974270
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|192301363|gb|FG998383.1|FG998383
EST:     CTATGACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|209723718|gb|BW662586.1|BW662586
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|17023657|gb|BM094691.1|BM094691
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|192321461|gb|FK011747.1|FK011747
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|9564352|gb|BE473861.1|BE473861
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|209724302|gb|BW662915.1|BW662915
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|57575614|gb|CX548589.1|CX548589
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|308098505|gb|HO760246.1|HO760246
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|254320364|gb|GR826381.1|GR826381
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|254322236|gb|GR837650.1|GR837650
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|193668417|gb|FK609351.1|FK609351
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|193549227|gb|FK507034.1|FK507034
EST:     TGAAGTTCCAGAGATTCAG                         GGAAACAAGTTTGTAGTAGGGGGCCCTCAGATGATTCAATTGAGTTTAGAT
genomic: TGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAG-TTG-AG-AGGGGGCCCTCAGATGATTCAATTGAGTTTAGAT
EST: gi|207816365|gb|GD786674.1|GD786674
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|193349336|gb|FK316494.1|FK316494
EST:     ATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGGTGATTCAATTGAGTTTAGATGGG
genomic: ATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|254335973|gb|GR841298.1|GR841298
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|193621429|gb|FK572317.1|FK572317
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
EST: gi|19269932|gb|BM886188.1|BM886188
EST:     CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAG                         GGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG
genomic: CTATAACTGATGATGGTGAAACATGGCAAGCTGAAGTTCCAGAGATTCAGgttattgcaa ... cctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgacattcaagggtatctatctcgtcagtggctgatgttaacattcctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGGAAGCGGCTCTATGCTACCAACTCACTATTTAGTACTTGGGACAAACAAT
                                   tgttaac  putative branch site (score: 2)
                                         cattcctttttc  CT-rich tract
                                     ttaacatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttggaacaccaatattattatatctgatgcatggatttattcttttgacattcaagggtatctatctcgtcagtggctgatgttaacattcctttttcagGGAAACAAGTTGAGAGGGGGCCCTCAGATGATTCAATTGAGTTTAGATGGGAAGCGGCTCTATGCTACCAACTCACTATTTAGTACTTGGGACAAACAAT

- - -acaccaa
- - - - - - - - - - - - - - gcatgga
- - - - - - - - - - - - - - - - - - - - - - - -acattca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggctga