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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGCAATGTAGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctatatgctattcatatgaaatttatctccttcagttgtgtgtttgtttgcttctctaaatcttctcatgcacttccctcttcctccaatacaaa...

Basic information

species Glycine max
transcript GLYMA15G13190.3
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G13190.3 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os05g38610.1 (Oryza sativa), 5'ss of exon 4
AGGCAATGTAGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgta--tgctatatgctattcatatgaaat----ttatctccttcagttgtgtgtttgtttgcttctctaaatcttctcatgcacttccctcttcctccaatacaaa
|   || || ||||| |    |||||| || ||  |||||||||| ||||||||| | ||||||||||||||||| |||||  | |||    |  |  || | ||||    ||||  | |||  |||| ||||||  |        |    || | || |  ||  ||  ||    |||     
AAATAACGTCGACAAAAGAACAGCACTCGAAAATCTGGATCTCATCCTATTGTGCCTCGATGAAATTGTTGATGGAGGgtaaatcctagtctcactggatgtcaaatgttcttattcctttcgtttgtatgtttggctttcatggcacgctttataat-cggttgtctgctctagtaat-----

upper sequence: GLYMA15G13190.3 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G431350_T03 (Zea mays), 5'ss of exon 3
----------------------AGGCAATGTAGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctatatgctattcatatgaaatttatctccttcag--ttgtgtgtttgtttgcttctctaaatcttctcatgcacttccctcttcctccaatacaaa----
                      |  ||  || ||||| | |  |||||| ||||| |||||| | || ||||||||| ||||||||||||||||||| |||||      || ||  || ||  | ||  ||    ||  |  || | |  |||||  |||   |   |    | ||  | |   |  || |||  | | ||     
TTTCCAATCTTGGTGGTTTCAGAAACATGGTTGACAAAAGGACAGCACTCGAGAATTTGGATATGATCCTATTGTGCCTTGATGAAATTGTTGATGGAGGgtaa-----atccttatcttactacatacatgatattagggcttcttttcttgttccctttattgtgtacatttat-tattcttcctttgctctgaaataatctga

upper sequence: GLYMA15G13190.3 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G431350_T01 (Zea mays), 5'ss of exon 4
AGGCAATGTAGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctatatgctattcatatgaaatttatctccttcag--ttgtgtgtttgtttgcttctctaaatcttctcatgcacttccctcttcctccaatacaaa----
|  ||  || ||||| | |  |||||| ||||| |||||| | || ||||||||| ||||||||||||||||||| |||||      || ||  || ||  | ||  ||    ||  |  || | |  |||||  |||   |   |    | ||  | |   |  || |||  | | ||     
AAACATGGTTGACAAAAGGACAGCACTCGAGAATTTGGATATGATCCTATTGTGCCTTGATGAAATTGTTGATGGAGGgtaa-----atccttatcttactacatacatgatattagggcttcttttcttgttccctttattgtgtacatttat-tattcttcctttgctctgaaataatctga

upper sequence: GLYMA15G13190.3 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM5G883149_T01 (Zea mays), 5'ss of exon 3
----------------------AGGCAATGTAGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctatatgctattcatatgaaatttatctccttcagttgtgtgtttgtttgcttctctaaatcttctcatgcacttccctcttcctccaatacaaa------
                         ||  || ||||| | |  |||||| ||||| ||||| || || ||||||||  ||||||||||||||||||| |||||         || ||| ||  |  |  ||    || ||  |  | |||  ||| |    | | | |   |||  | |  ||| |      ||  ||        
TTTCCAACCTTGGTGGTTTCAGGAACATGGTTGACAAAAGGACAGCACTCGAGAATTTGGACCTGATCCTATTGTGTCTTGATGAAATTGTTGATGGAGGgtaaagc-----cttttcttactacgtacatgatattaagg-gcttcttttcttgttctctttattgtgtacatttattatcctttgatctgaaatcacctgactc

upper sequence: GLYMA15G13190.3 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM5G883149_T03 (Zea mays), 5'ss of exon 4
AGGCAATGTAGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctatatgctattcatatgaaatttatctccttcagttgtgtgtttgtttgcttctctaaatcttctcatgcacttccctcttcctccaatacaaa------
   ||  || ||||| | |  |||||| ||||| ||||| || || ||||||||  ||||||||||||||||||| |||||         || ||| ||  |  |  ||    || ||  |  | |||  ||| |    | | | |   |||  | |  ||| |      ||  ||        
GAACATGGTTGACAAAAGGACAGCACTCGAGAATTTGGACCTGATCCTATTGTGTCTTGATGAAATTGTTGATGGAGGgtaaagc-----cttttcttactacgtacatgatattaagg-gcttcttttcttgttctctttattgtgtacatttattatcctttgatctgaaatcacctgactc

upper sequence: GLYMA15G13190.3 (Glycine max), 5'ss of exon 4
lower sequence: Vv10s0003g02760.t01 (Vitis vinifera), 5'ss of exon 5
AGGCAATGTAGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctatatgctatt--catatgaaatttatctccttcagttgtgtgtttgtttgcttctctaaatcttctcatgcacttccctcttcctccaatacaaa
 |||||||| ||||||||||| ||||| |||||||||||| | ||||| || ||| ||||||||||| |||||||||||||||| |||||||  |  |||||  ||  |||    ||   ||   |   |   | ||       ||     | || || |      |||| |||  |   
GGGCAATGTGGACAAGAAGGAGGCACTTGAGAACTTGGATTTAATTCTTTTATGCCTTGATGAAATTATTGATGGCGGgtatgcaatatgcttcttgcatatataaactatacttttttttttgataggtaaattctgtctcccattgggacttgaacctagaatctcctacaaaccc--

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|298178201|gb|HO023936.1|HO023936
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|298190231|gb|HO032352.1|HO032352
EST:     GAGAACTTGGACCTCATTCTATTGTGCATTGATGAAATTGTTGGTGGCGG                         TATCATACTTGAAACTGATCCAAATGCTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|151408791|gb|EV278599.1|EV278599
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         GATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|192325778|gb|FK018000.1|FK018000
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|41145498|gb|CK605709.1|CK605709
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|20814390|gb|BQ298868.1|BQ298868
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|58014334|gb|CX701076.1|CX701076
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|151408109|gb|EV277917.1|EV277917
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|192294109|gb|FG986198.1|FG986198
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|298194358|gb|HO041006.1|HO041006
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|209704906|gb|BW661709.1|BW661709
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|8402161|gb|BE057795.1|BE057795
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|58017732|gb|CX704474.1|CX704474
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|23729019|gb|BU762586.1|BU762586
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|14258489|gb|BG881397.1|BG881397
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCCG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGGTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|5057863|gb|AI736339.1|AI736339
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTA
EST: gi|298175562|gb|HO018273.1|HO018273
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|298175469|gb|HO015102.1|HO015102
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|209704905|gb|BW661708.1|BW661708
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
EST: gi|27425032|gb|CA936552.1|CA936552
EST:     GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGG                         TATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA
genomic: GAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctata ... ttttgtgcagTATCATACTTGAAACTGATCCAAATGTTATAGCTGGGAAAGTTGCTAGTAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGCAATGTAGACAAGAAGGAAGCACTAGAGAACTTGGATCTCATTCTATTGTGCATTGATGAAATTGTTGATGGCGGgtatgctatatgctattcatatgaaatttatctccttcagttgtgtgtttgtttgcttctctaaatcttctcatgcacttccctcttcctccaatacaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcctcc