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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctgaacacagggggcacaccacatgtttctgctattactgtatatgtaatatataatataattatgaaaatttgaattctcaagactactcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTAATGTCAGATTGCGTGGTTGTTGAGATAAAGGAACCTGAGGCCATACCTG

Basic information

species Glycine max
transcript GLYMA08G18760.3
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G18760.3 (Glycine max), 3'ss of exon 12
lower sequence: AT1G55490.1 (Arabidopsis thaliana), 3'ss of exon 13
tctgaacacagggggcacaccacatgtttctgctattactgtatatgtaatatataata-taattatgaaaatttgaattctcaagactac-tcttg--tacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTAATGTCAGATTGCGTGGTTGTTGAGATAAAGGAACCTGAGGCCATACCTG
            |           ||  | | |    ||||| | ||  |  || | |  | || |   |    ||||       | ||   |||||  |  |||| || ||||||||| |||| || ||||| || || || || || ||||| ||||| || ||||| ||||||||||| |||||||||||  |  | || |
------------gtaagttttctgtgcatatacagaaactgtctttgctagctaaattggtcatcaaagatccatgaacctgagtggctttatcttgattttagGTTGTGAGATGTTGCTTGGAACACGCAGCTTCGGTTGCAAAGACTTTCTTGATGTCGGACTGCGTTGTTGTTGAGATCAAGGAACCTGAACCAGTTCCCG

upper sequence: GLYMA08G18760.3 (Glycine max), 3'ss of exon 12
lower sequence: Vv06s0004g00240.t01 (Vitis vinifera), 3'ss of exon 13
tctgaacacagggggcacaccacatgtttctgctattactgtatatgtaatatataatataattatgaaaatttgaattctcaagac-tactcttgt-acagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTAATGTCAGATTGCGTGGTTGTTGAGATAAAGGAACCTGAGGCCATACCTG
  |  | |   |  | ||    ||   || |        |  |  |   |   || |  | | | ||||||      ||||    || |  ||  ||  |||||||| || |||||||||||||||||| | || || |||||||| ||||| ||||||||||| || || || || || || || |||||  |  |   ||
--tacatatttgttgaaccatccaccattttttcggggttccaattcctactcattaggtgaatctgaaaaacatgtttctttttacgttttcccgttgcagGTGGTGAGGTGTTGCCTGGAGCATGCATCATCAGTGGCCAAAACTTTCTTGATGTCAGATTGTGTAGTGGTGGAAATCAAAGAGCCTGAACCAGTGGTTG
















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|208094046|gb|GD894471.1|GD894471
EST:     TTAAATTATTGAAGTATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: -TAAA-TA-TGAAG-ATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|16278312|gb|BI942837.1|BI942837
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|6454762|gb|AW185445.1|AW185445
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|14516384|gb|BI095056.1|BI095056
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAATG                         GTGGTCAGATGTTGCCTGTAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|16344875|gb|BI970470.1|BI970470
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|208203798|gb|GE004825.1|GE004825
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|209702280|gb|BW677975.1|BW677975
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|6455205|gb|AW185888.1|AW185888
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|7685797|gb|AW756445.1|AW756445
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|16278884|gb|BI943144.1|BI943144
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|254328223|gb|GR835188.1|GR835188
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|207761079|gb|GD733254.1|GD733254
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|6718933|gb|AW306580.1|AW306580
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|20814636|gb|BQ299114.1|BQ299114
EST:     GTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: GTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|208069778|gb|GD870441.1|GD870441
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|6915381|gb|AW396911.1|AW396911
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|16282149|gb|BI944863.1|BI944863
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGCCAGATGTTGCCTGGAGCATGCAACCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|16282846|gb|BI945236.1|BI945236
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGCCAGATGTTGCCTGGAGCATGCAACCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|16281476|gb|BI944507.1|BI944507
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|7639932|gb|AW734243.1|AW734243
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|193311611|gb|FK275521.1|FK275521
EST:     CTGGTAAATACGGAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCTTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|10232698|gb|BE801586.1|BE801586
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTCATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|209698543|gb|BW652409.1|BW652409
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|208072209|gb|GD870225.1|GD870225
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGG
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGG
EST: gi|151401056|gb|EV270870.1|EV270870
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|8402244|gb|BE057878.1|BE057878
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|27427470|gb|CA938990.1|CA938990
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|20449400|gb|BQ253524.1|BQ253524
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCAT
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCAT
EST: gi|120534219|gb|EH262352.1|EH262352
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|208144499|gb|GD941662.1|GD941662
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|6227700|gb|AW156299.1|AW156299
EST:     TGGTAAATATGAAGAATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: TGGTAAATATGAAG-ATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|254322415|gb|GR837829.1|GR837829
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|193320008|gb|FK287643.1|FK287643
EST:     GAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: GAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|151412595|gb|EV282407.1|EV282407
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAA-CCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
EST: gi|46492945|gb|CN472501.1|CN472501
EST:     CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAG                         GTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA
genomic: CTGGTAAATATGAAGATTTGATGTCTGCTGGGATCATTGATCCAACAAAGgtgattttct ... tcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtaatatataatataattatgaaaatttgaattctcaagactactcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTAATGTCAGATTGCGTGGTTGTTGAGATAAAGGAACCTGAGGCCATACCTG
                                         ctactctt  CT-rich tract
     tatataatataattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctgaacacagggggcacaccacatgtttctgctattactgtatatgtaatatataatataattatgaaaatttgaattctcaagactactcttgtacagGTGGTCAGATGTTGCCTGGAGCATGCAGCCTCTGTAGCCAAAACCTTCTTAATGTCAGATTGCGTGGTTGTTGAGATAAAGGAACCTGAGGCCATACCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
tctgaac
- - - - - - - gcacacc
- - - - - - - - - - - - - -ttctgct