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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACGACATAACATGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCACgtaagaatatatgcatatgtttatttgagaattgagatagaaaagccatattgtattttcagtaattctttcacacaacggggctcctcaagaacctaat...

Basic information

species Glycine max
transcript GLYMA06G10540.1
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G10540.1 (Glycine max), 5'ss of exon 19
lower sequence: Vv18s0001g06520.t01 (Vitis vinifera), 5'ss of exon 22
AACGACATAACATGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCACgtaagaatatatgcatatgtttatttgagaattgagatagaaaagccatattgtattttcagtaattctttcacacaacggggctcctcaagaacctaat---
|| ||  | ||||||||||| ||||| ||||||||| |||| |||||||| |||||||||||||||||| ||||   | || |  |  |  ||    |||    ||  || ||| |  ||  |    || | |  ||  | |||      |    |   | |   
AAAGATGTGACATGGCATGAGGACAACTGGGACAATTATGAGAGCAAATTCCTTGCATTCACgtaagaa-atatat-tctgctgctaagtaaacatggatgtctaaatca-attctgcttctaagtgttttattgcatgatgggatcgagcttacattcattttt
















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|208120541|gb|GD917984.1|GD917984
EST:     TGGCATGAAGACAATTGGGACAATCATGACAACAAATTTCTTGCATTCAC                         GCTTCATGACAAGAGCGGGGGAGATATCTATTTGGCATTTAATGCTCACGA
genomic: TGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCACgtaagaatat ... gtgcacgcagGCTTCATGACAAGAGCGGGGGAGATATCTATTTGGCATTTAATGCTCACGA
EST: gi|208148902|gb|GD949356.1|GD949356
EST:     TGGCATGAAGACAATTGGGACAATCATGACAACAAATTTCTTGCATTCAC                         GCTTCATGACAAGAGCGGGGGAGATATCTATTTGGCATTTAATGCTCACGA
genomic: TGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCACgtaagaatat ... gtgcacgcagGCTTCATGACAAGAGCGGGGGAGATATCTATTTGGCATTTAATGCTCACGA
EST: gi|208298702|gb|GE095051.1|GE095051
EST:     TGGCATGAAGACAATTGGGACAATCATGACAACAAATTTCTTGCATTCAC                         GCTTCATGACAAGAGCGGGGGAGATATCTATTTGGCATTTAATGCTCACGA
genomic: TGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCACgtaagaatat ... gtgcacgcagGCTTCATGACAAGAGCGGGGGAGATATCTATTTGGCATTTAATGCTCACGA
EST: gi|193509752|gb|FK470758.1|FK470758
EST:     TGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCAC                         GCTTCATGACAAGAGCGGGGGAGATATCTATTTGGCATTTAATGCTCACGA
genomic: TGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCACgtaagaatat ... gtgcacgcagGCTTCATGACAAGAGCGGGGGAGATATCTATTTGGCATTTAATGCTCACGA
EST: gi|208061591|gb|GD857163.1|GD857163
EST:     TGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCAC                         GCTTCATGACAAGAGCGGGGGAGATATCTATTTCGCATTTAATGCACACGA
genomic: TGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCACgtaagaatat ... gtgcacgcagGCTTCATGACAAGAGCGGGGGAGATATCTATTTGGCATTTAATGCTCACGA
EST: gi|208208486|gb|GE008477.1|GE008477
EST:     TGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCAC                         GCTTCATGACAAGAGCGGGGGAGATATCTATTTGGCATTTAATGCTCACGA
genomic: TGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCACgtaagaatat ... gtgcacgcagGCTTCATGACAAGAGCGGGGGAGATATCTATTTGGCATTTAATGCTCACGA
EST: gi|193728840|gb|FK663786.1|FK663786
EST:     TGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCAC                         GCTTCATGACAAGAGCGGGGGANATATCTATTTGGCATTTAATGCTCACGA
genomic: TGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCACgtaagaatat ... gtgcacgcagGCTTCATGACAAGAGCGGGGGAGATATCTATTTGGCATTTAATGCTCACGA
EST: gi|193732865|gb|FK668194.1|FK668194
EST:     TGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCAC                         GCTTCATGACAAGAGCGGGG-AGATATCTATTTGGCATTTAATGCTCACGA
genomic: TGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCACgtaagaatat ... gtgcacgcagGCTTCATGACAAGAGCGGGGGAGATATCTATTTGGCATTTAATGCTCACGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACGACATAACATGGCATGAAGACAATTGGGACAATCATGACAGCAAATTTCTTGCATTCACgtaagaatatatgcatatgtttatttgagaattgagatagaaaagccatattgtattttcagtaattctttcacacaacggggctcctcaagaacctaat

- - - - - - - -  TGAAGA