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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGAGGTCTTCGGGAACTACTTGTAGGGAAGGATGATGAGCTTCTCCAGACTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatttttattattgataaataactcagatggacataacacctccccgcacgtttccccactaaaaaaatccaacattgttttggcccggtttag...

Basic information

species Glycine max
transcript GLYMA18G39930.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G39930.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv08s0007g00530.t01 (Vitis vinifera), 5'ss of exon 6
TGGAGGTCTTCGGGAACTACTTGTAGGGAAGGATGATGAGCTTCTCCAGACTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatttttattattgataaataactcagatggacat----------aacacctccccgcacgtttc--cccacta--aaaaaatccaacattgttttgg----cccggtttag------------------------------------------
 || ||  | |||||| ||||||| || |||||||||||||||||  |||| ||||| || ||||| |||||   ||||||||||||||| ||||||||||||     ||   |    |  |  ||       ||| |  |          ||  | | |  |  | | ||  |  || |  | | | ||  ||||    || |    |  ||||  |                                          
AGGTGGCATCCGGGAATTACTTGTTGGCAAGGATGATGAGCTTCTTAAGACAGAAACAAGGACCATTACTAGGAATGATGTTGCAGAAGTTTGCATTCAGgtaatagtttacaagggcttgtgcatgttcattatgcattttttctgtttcaattcttgcttgttcttctctgcttaccattatatattcatacataacgttagatttcttggttgtgccccatcttgactgagttgcaaattacatgttctctaaccag
















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|193668463|gb|FK612687.1|FK612687
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAA
EST: gi|58019799|gb|CX706541.1|CX706541
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|193716729|gb|FK654287.1|FK654287
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|207791005|gb|GD761400.1|GD761400
EST:     TTGAAGCCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: -TGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|208335948|gb|GE133809.1|GE133809
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|208298616|gb|GE089799.1|GE089799
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|213591769|gb|DB975654.1|DB975654
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|214006979|gb|DB988430.1|DB988430
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|208098334|gb|GD894755.1|GD894755
EST:     CTGAAACCAGAACCATAAGTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTTTGAGGAGGCT
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCT
EST: gi|208194340|gb|GD987623.1|GD987623
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|6915274|gb|AW396804.1|AW396804
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|208279633|gb|GE081260.1|GE081260
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTA
EST: gi|207691018|gb|GD671164.1|GD671164
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTCGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|193560744|gb|FK521059.1|FK521059
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAAATTCAAGGCATTTGACTTGGCGTCAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCT-AAATTCAAGGCATTTGACTTGGCGTCAAA
EST: gi|58022869|gb|CX709610.1|CX709610
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|58016336|gb|CX703078.1|CX703078
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|193477638|gb|FK442269.1|FK442269
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|8825861|gb|BE209591.1|BE209591
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAC                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|193684321|gb|FK621849.1|FK621849
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|207719861|gb|GD703046.1|GD703046
EST:     TCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: TCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|58019388|gb|CX706130.1|CX706130
EST:     CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAG                         GCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTCAAGGCATTTGACTTGGCGTCAAAA
EST: gi|7028397|gb|AW458180.1|AW458180
EST:     CTGACACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAA                         GCACTAAATTATGAGGAGGCTAAATTC
genomic: CTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatt ... ggtttaacagGCACTAAATTATGAGGAGGCTAAATTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGAGGTCTTCGGGAACTACTTGTAGGGAAGGATGATGAGCTTCTCCAGACTGAAACCAGAACCATAACTAGATCTGATGTTGCAGAAGTCTGCATTCAGgtatcttatttttattattgataaataactcagatggacataacacctccccgcacgtttccccactaaaaaaatccaacattgttttggcccggtttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT