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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttcatcttcctaaccaatattaacgttttaatttattattattatttgtggctagtaatggctttaaaatttaagggtgatcatgtatgttgtgattctcacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGGGTCGCTGACCCAGGCATCAGCTATTAGAGTTGGGTCTTTCCAAGGGGAG

Basic information

species Glycine max
transcript GLYMA05G31450.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G31450.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0031g00920.t01 (Vitis vinifera), 3'ss of exon 2
gttagtttcatcttcctaaccaatattaacgttttaatttattattatta---------tttgtggctagtaatggctttaaaattta--agggtgatcatgtatgttg-----tgattctcac---ttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGGGTCGCTGACCCAGGCATCAGCTATTAGAGTTGGGTCTTTCCAAGGGGAG
|| |||||| || | ||  ||    ||  |    || ||  |||  |  |         | | ||| | || |    | |  | |||   |   ||||  |  || |||     ||  ||   |   || ||||||| |||||||||||||| ||||||||| | |||| ||||||||||||||| |||||||| ||||||||  | ||  |||||||||| | | | || |||
gtgagtttcttcgttcttgccctgctttgctccatacttgtttaaaaaaaaaaaaaaactgtttggttggtgagatttgttgatttttttaaaatgatttttaattttgagaagtgggtcatgcattttatcagGGGAATTTCATGGGCAACCAAGGACAAGGTGCAACCAGCCAATTACTTTGGCTCGCTGACTCAGGCATCGACCATCCGAGTTGGGTCCTACAATGGAGAG
















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|120533337|gb|EH261470.1|EH261470
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|208225157|gb|GE022230.1|GE022230
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTACAAACAAAGCCAATTACTT
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATT-CAA-CAA-GCCAATTACTT
EST: gi|208106820|gb|GD902353.1|GD902353
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTCTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|19346456|gb|BM891336.1|BM891336
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|193656395|gb|FK602867.1|FK602867
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCA
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCA
EST: gi|207845053|gb|GD817534.1|GD817534
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|208284607|gb|GE085099.1|GE085099
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|208045937|gb|GD848171.1|GD848171
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACA
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACA
EST: gi|208159306|gb|GD954257.1|GD954257
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|193730678|gb|FK663944.1|FK663944
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCA
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCA
EST: gi|193514317|gb|FK470633.1|FK470633
EST:     TGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: TGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|15285158|gb|BI469049.1|BI469049
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|213588844|gb|DB967938.1|DB967938
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|17021895|gb|BM092929.1|BM092929
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|20814880|gb|BQ299358.1|BQ299358
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|207767523|gb|GD739263.1|GD739263
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|193718097|gb|FK653829.1|FK653829
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|208306153|gb|GE104946.1|GE104946
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAG
EST: gi|208327147|gb|GE122369.1|GE122369
EST:     CTCACCGGTGGTGTTTATTTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: CTCACCGGTGGTG-TTA-TTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|207844116|gb|GD815211.1|GD815211
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|120533531|gb|EH261664.1|EH261664
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|120529472|gb|EH257606.1|EH257606
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|15338188|gb|BI498852.1|BI498852
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|208161439|gb|GD963893.1|GD963893
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|22540793|gb|BU090627.1|BU090627
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|20813560|gb|BQ298038.1|BQ298038
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|120495837|gb|EH224004.1|EH224004
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|9258023|gb|BE346146.1|BE346146
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|208192854|gb|GD989247.1|GD989247
EST:     GTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTG
genomic: GTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAA-CCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTG
EST: gi|207838980|gb|GD813442.1|GD813442
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|10237426|gb|BE806314.1|BE806314
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
EST: gi|208084212|gb|GD880466.1|GD880466
EST:     GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGA                         GGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG
genomic: GGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttca ... cacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaatggctttaaaatttaagggtgatcatgtatgttgtgattctcacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGGGTCGCTGACCCAGGCATCAGCTATTAGAGTTGGGTCTTTCCAAGGGGAG
                                         ttctcac  putative branch site (score: 2)
                                         ttctcacttctc  CT-rich tract
        tttaaaatttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtttcatcttcctaaccaatattaacgttttaatttattattattatttgtggctagtaatggctttaaaatttaagggtgatcatgtatgttgtgattctcacttctcagGGGTATTTCATGGGCAACAAAGGACAAGATTCAACAAGCCAATTACTTTGGGTCGCTGACCCAGGCATCAGCTATTAGAGTTGGGTCTTTCCAAGGGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT