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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttctcatatttatgataatgtgaaatccacagtccattttgcaaacttaaagactgtttatctgcgaagcaagatttatagacttgtaaatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACCATGGAGGACATACTGACCCAGCTGAAGAAGGAAATGGCTGCTCCTCATA

Basic information

species Glycine max
transcript GLYMA10G09280.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G09280.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g02580.t01 (Vitis vinifera), 3'ss of exon 3
---acttctcatatttatgat-aatgtgaaatccacagtccattttgcaaacttaaagactgtttatctgcgaagcaagatttatagacttgtaaatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACCATGGAGGACATACTGACCCAGCTGAAGAAGGAAATGGCTGCTCCTCATA
     ||     ||  ||  | ||  | |    ||   ||   |||    |      ||   || |  || |   |||| | |   |   |  |  ||  |||||| ||||| ||||| |||||  |||| |||||||||||  | ||||||||||||||||| |||||||| |||||||||||||| |||||||| || || |
gacgatttgtgaataaatagttaaattcaggaacaagatctgatttatggat----ggataattgaattgggtgacaaggtctgatgggatccatttgttacagGTGGAACCTAAGAAGTTTGGAATTCTGGCAAATTGGCAGCGGGAGTACACCATGGAGGATATACTGACACAGCTGAAGAAGGAGATGGCTGCGCCACAAA
















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|8827200|gb|BE210930.1|BE210930
EST:     GTTTCATTCACGAGTCAACATGACTTGTGTGTA-TCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGACTTCTTGCAGATGGGCAAAGAGAGTACACC
genomic: GTTTCATTCACGAGTCAACATGACTTGTGT-TAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|192294086|gb|FG986175.1|FG986175
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|209699482|gb|BW667670.1|BW667670
EST:     GGTTTCATTCACGAATCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|13563351|gb|BG551571.1|BG551571
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAG
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAG
EST: gi|192328578|gb|FK023568.1|FK023568
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|17022747|gb|BM093781.1|BM093781
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|15662585|gb|BI699948.1|BI699948
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|209710537|gb|BW662073.1|BW662073
EST:     GGTTTCATTCACGAATCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|21677270|gb|BQ629621.1|BQ629621
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|7690948|gb|AW759084.1|AW759084
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|7284283|gb|AW596878.1|AW596878
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|15664086|gb|BI701457.1|BI701457
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|209710536|gb|BW662072.1|BW662072
EST:     GGTTTCATTCACGAATCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|151393123|gb|EV262998.1|EV262998
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|192307166|gb|FK001194.1|FK001194
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|209724946|gb|BW669636.1|BW669636
EST:     GGTTTCATTCACGAATCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|4314038|gb|AI461157.1|AI461157
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGA
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGA
EST: gi|209724945|gb|BW669635.1|BW669635
EST:     GGTTTCATTCACGAATCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|151398431|gb|EV268302.1|EV268302
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|192307167|gb|FK001195.1|FK001195
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|23733678|gb|BU765045.1|BU765045
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|6482623|gb|AW201868.1|AW201868
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|6847781|gb|AW350071.1|AW350071
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|7283899|gb|AW596500.1|AW596500
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|254339698|gb|GR857823.1|GR857823
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|192294192|gb|FG986281.1|FG986281
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|18041024|gb|BM309318.1|BM309318
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|27426289|gb|CA937809.1|CA937809
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|254339699|gb|GR857824.1|GR857824
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|192328579|gb|FK023569.1|FK023569
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|20811443|gb|BQ295921.1|BQ295921
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|209699481|gb|BW667669.1|BW667669
EST:     GGTTTCATTCACGAATCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
EST: gi|4284934|gb|AI440843.1|AI440843
EST:     GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTG                         GTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC
genomic: GGTTTCATTCACGAGTCAACATGACTTGTGTTAATCATGAAACTGGAGTGgtatcattta ... aatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacttaaagactgtttatctgcgaagcaagatttatagacttgtaaatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACCATGGAGGACATACTGACCCAGCTGAAGAAGGAAATGGCTGCTCCTCATA
                           aagatttata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acttctcatatttatgataatgtgaaatccacagtccattttgcaaacttaaagactgtttatctgcgaagcaagatttatagacttgtaaatgaaacagGTTGAACCAAAGAAATTTGGTCTTCTTGCAAATTGGCAAAGAGAGTACACCATGGAGGACATACTGACCCAGCTGAAGAAGGAAATGGCTGCTCCTCATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - atccaca
- - - - - - - - - - - - - - - - - - - - -tgcaaac