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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCCTCAAGACGTTGAGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttttttttaaagaattttgtttctcaattattttttttttgtttaattgatgtgtaatgaatgcccttctatgctttcactaggatttgaatt...

Basic information

species Glycine max
transcript GLYMA08G43230.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G43230.3 (Glycine max), 5'ss of exon 2
lower sequence: Vv19s0090g00910.t01 (Vitis vinifera), 5'ss of exon 2
CTTCCTCAAGACGTTGAGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttttttttaaagaattttgtttctcaattattttttt---tttgtttaattgatgtgtaatgaatgcccttctatgctttcactaggatttgaatt--
|||||  | ||| |||| |||||||| |||||||||||||| ||||| ||||| ||| | ||| ||||||| ||      ||      ||| |  ||| | |||| |  ||     ||||| |  | ||||   |  | |  | |  ||   ||  || |  |||  ||   
CTTCCAGAGGACATTGAATGGCATTTTATTGGGCATTTGCAGAGCAATAAAGTGAAACCGCTTCTGGgtatgttccaaaattggttgttttcg--tctgatttatctggttgagcatgttttagagttgtggggttcaagttcctgaat---ttatcttgattttttatcaa
















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|298199617|gb|HO043494.1|HO043494
EST:     GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|209708248|gb|BW678618.1|BW678618
EST:     GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|120530250|gb|EH258384.1|EH258384
EST:     GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|20498376|gb|BQ273306.1|BQ273306
EST:     ATGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|31473950|gb|CD415978.1|CD415978
EST:     AAGCAACAAAGTCCAAAACACTTTTGGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: AAGCAACAAAGT-CAAAACACTTTT-GGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|209728275|gb|BW658487.1|BW658487
EST:     GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|21285679|gb|BQ473550.1|BQ473550
EST:     GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|298165006|gb|HO011055.1|HO011055
EST:     GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|208064645|gb|GD865921.1|GD865921
EST:     CAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: CAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|13180762|gb|BG352102.1|BG352102
EST:     GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|208156781|gb|GD957287.1|GD957287
EST:     CATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: CATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|20207929|gb|BQ134018.1|BQ134018
EST:     TGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTNTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: TGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTT-TTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|298163042|gb|HO011775.1|HO011775
EST:     GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|298179673|gb|HO024888.1|HO024888
EST:     GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|193664931|gb|FK610891.1|FK610891
EST:     GGGCATTTGCAAAGCAACAAAGTCAAAACAC-TTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|20449854|gb|BQ253978.1|BQ253978
EST:     TGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAG
genomic: TGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTT-GGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAG
EST: gi|15664325|gb|BI701696.1|BI701696
EST:     ATGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|193353738|gb|FK319422.1|FK319422
EST:     GGGCATTTGTCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GGGCATTTG-CAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|10843789|gb|BF067045.1|BF067045
EST:     ATGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGG
EST: gi|209705383|gb|BW668013.1|BW668013
EST:     GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|7926422|gb|AW832448.1|AW832448
EST:     GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|207845177|gb|GD816202.1|GD816202
EST:     CATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: CATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|21993868|gb|BQ785396.1|BQ785396
EST:     GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|15337855|gb|BI498511.1|BI498511
EST:     ATGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|17401932|gb|BM178714.1|BM178714
EST:     ATGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAG
EST: gi|15285565|gb|BI469456.1|BI469456
EST:     ATGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAGGTA
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGGCCATGGTCCAGAGTGTGGACAATCAGAAGGTA
EST: gi|20207556|gb|BQ133645.1|BQ133645
EST:     ATGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGG                         GTGGAGTTCCAAATCTGG
genomic: GTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttt ... ctttatgcagGTGGAGTTCCAAATCTGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTCCTCAAGACGTTGAGTGGCATTTCATTGGGCATTTGCAAAGCAACAAAGTCAAAACACTTTTGGgtatattttttttttaaagaattttgtttctcaattattttttttttgtttaattgatgtgtaatgaatgcccttctatgctttcactaggatttgaatt

- - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - -  AAGCAA