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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGGTTGAATTATCTTCTAGAAAGAGACAATAATGGCTGGGATGCAAATCTAAACTGGGAAGACATTCTCTCTCTTGGAGAACAGCAGAGATTAGGCATGgtatgtaaatctaatctatattatttttaaaatgagtttgttaaatttgtttaatatattaggtaaaggaagacattagaatatgtttatgatattcttctatttggattttaacatttaccttatgttcttaag

Basic information

species Glycine max
transcript GLYMA11G38160.1
intron # 24
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G38160.1 (Glycine max), 5'ss of exon 24
lower sequence: AT4G39850.1 (Arabidopsis thaliana), 5'ss of exon 23
TAGGTTGAATTATCTTCTAGAAAGAGACAATAATGGCTGGGATGCAAATCTAAACTGGGAAGACATTCTCTCTCTTGGAGAACAGCAGAGATTAGGCATGgtatgtaaatctaatctatattatttttaaaatgagtttgttaaatttgtttaatatattaggtaaaggaagacattagaatatgtttatgatattcttctatttggattttaacatttaccttatgttcttaag
| ||||   ||||||  | |||||||||     ||| |||||||| | |   || |||||||||||  | ||||||||||| || ||||||||||||||||||         | |||       || || |   |       | | || | || | ||| |   |   ||| | ||  || |  |||  |  | |                                        
TCGGTTAGTTTATCTCTTGGAAAGAGACGTAGGTGGTTGGGATGCTACTACCAATTGGGAAGACATATTATCTCTTGGAGAGCAACAGAGATTAGGCATGgta---------agtct------cttgtagagcaa---caccagacttatatagtttatgattcaggtgaata-atctgacttggttcgtattgtag--------------------------------------
















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|193671127|gb|FK613249.1|FK613249
EST:     TAAACTGGGAAGACATTCTCTCTCTTGGAGAACAGCAGAGATTAGGCATG                         GCACGCTTGTTCTTCCATAAGCCTAAATTTGGTATCCTGGACGAGTGTACC
genomic: TAAACTGGGAAGACATTCTCTCTCTTGGAGAACAGCAGAGATTAGGCATGgtatgtaaat ... tgttcttaagGCACGCTTGTTCTTCCATAAGCCTAAATTTGGTATCCTGGACGAGTGTACC
EST: gi|18712534|gb|BM522649.1|BM522649
EST:     TAAACTGGGAAGACATTCTCTCTCTTGGAGAACAGCAGAGATTAGGCATG                         GCACGCTTGTTCTTCCATAAGCCTAAATTTGGTATCCTGGACGAGTGTACC
genomic: TAAACTGGGAAGACATTCTCTCTCTTGGAGAACAGCAGAGATTAGGCATGgtatgtaaat ... tgttcttaagGCACGCTTGTTCTTCCATAAGCCTAAATTTGGTATCCTGGACGAGTGTACC
EST: gi|7234108|gb|AW569448.1|AW569448
EST:     TAAACTGGGAAGACATTCTCTCTCTTGGAGAACAGCAGAGATTAGGCATG                         GCACGCTTGTTCTTCCATAAGCCTAAATTTGGTATCCTGGACGAGTGTACC
genomic: TAAACTGGGAAGACATTCTCTCTCTTGGAGAACAGCAGAGATTAGGCATGgtatgtaaat ... tgttcttaagGCACGCTTGTTCTTCCATAAGCCTAAATTTGGTATCCTGGACGAGTGTACC
EST: gi|8404009|gb|BE059643.1|BE059643
EST:     TAAACTGGGAAGACATTCTCTCTCTTGGAGAACAGCAGAGATTAGGCATG                         GCACGCTTGTTCTTC
genomic: TAAACTGGGAAGACATTCTCTCTCTTGGAGAACAGCAGAGATTAGGCATGgtatgtaaat ... tgttcttaagGCACGCTTGTTCTTC

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAGGTTGAATTATCTTCTAGAAAGAGACAATAATGGCTGGGATGCAAATCTAAACTGGGAAGACATTCTCTCTCTTGGAGAACAGCAGAGATTAGGCATGgtatgtaaatctaatctatattatttttaaaatgagtttgttaaatttgtttaatatattaggtaaaggaagacattagaatatgtttatgatattcttctatttggattttaacatttaccttatgttcttaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA