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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTCATTGGAGCCCGGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAGgtctaatatatatgacgtaaaatggtattgatatttcaaaatttcctttcaaagtggcctataacttcacattatcatgtatcag

Basic information

species Glycine max
transcript GLYMA19G18330.4
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G18330.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os08g41830.1 (Oryza sativa), 5'ss of exon 8
GGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTCATTGGAGCCCGGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAGgtctaatatatatgacgtaaaatggtattgatatttcaaaatttcctttcaaagtggcctataacttcacattatcatgtatcag
 |||||||| || ||| | ||||| ||||| ||||| || ||||| || || ||||| |||||||| ||   |||||| || |||||||||||||| ||||| || |  |        ||| |    |   ||  |||  |||   ||| | ||| | |  | | |    | | | ||  |||||
TGATCATGGATACCCACTTCGTGTTGTTGTACCTGGAGTAATTGGCGCACGCTCTGTAAAATGGCTTGACAGTATCAACATAATTGAAGAAGAATGCCAGgtttactgaa--------aaattcagctcagtacctcatcattat-tttaagagtcgacactgatt----actgtgatcgatcag
















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|193468646|gb|FK431394.1|FK431394
EST:     GGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAG                         GGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
genomic: GGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAGgtctaatata ... catgtatcagGGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
EST: gi|58016595|gb|CX703337.1|CX703337
EST:     GGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAG                         GGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
genomic: GGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAGgtctaatata ... catgtatcagGGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
EST: gi|208121926|gb|GD918935.1|GD918935
EST:     GGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAG                         GGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
genomic: GGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAGgtctaatata ... catgtatcagGGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
EST: gi|208282728|gb|GE075982.1|GE075982
EST:     GGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAG                         GGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
genomic: GGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAGgtctaatata ... catgtatcagGGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
EST: gi|207779304|gb|GD751562.1|GD751562
EST:     TGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAG                         GGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
genomic: TGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAGgtctaatata ... catgtatcagGGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
EST: gi|192323902|gb|FK018638.1|FK018638
EST:     GGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAG                         GGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
genomic: GGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAGgtctaatata ... catgtatcagGGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
EST: gi|208339393|gb|GE134437.1|GE134437
EST:     GAAGAAGAATGTCAG                         GGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
genomic: GAAGAAGAATGTCAGgtctaatata ... catgtatcagGGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
EST: gi|193335863|gb|FK299793.1|FK299793
EST:     GGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAG                         GGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
genomic: GGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAGgtctaatata ... catgtatcagGGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
EST: gi|193394029|gb|FK358118.1|FK358118
EST:     AAGAATGTCAG                         GGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
genomic: AAGAATGTCAGgtctaatata ... catgtatcagGGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
EST: gi|192330068|gb|FK020884.1|FK020884
EST:     GGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAG                         GGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG
genomic: GGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAGgtctaatata ... catgtatcagGGTTTCTTCATGCAAAAGGACTACAAAATGTTTCCACCATCAGTGAATTGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGATCATGGGTATCCATTACGTGTGGTTGTTCCTGGTGTCATTGGAGCCCGGTCTGTTAAATGGCTGGAAGATATCAATATCATTGAAGAAGAATGTCAGgtctaatatatatgacgtaaaatggtattgatatttcaaaatttcctttcaaagtggcctataacttcacattatcatgtatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG