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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAATGGCAAATACAGAATACTTGGATGACCAAGATGCTGAAGAGCCGGATGACTTCATCATTTCGCTCACTGCACAGgtgtgtctttctatctttgtatgttttgtcttcatgaagttcttagttgtatcctgggatggatatggaaatgaaccattgggagttacaagagtaatac...

Basic information

species Glycine max
transcript GLYMA10G35190.2
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G35190.2 (Glycine max), 5'ss of exon 19
lower sequence: Vv13s0019g04770.t01 (Vitis vinifera), 5'ss of exon 20
GAAATGGCAAATACAGAATACTTGGATGACCAAGATGCTGAAGAGCCGGATGACTTCATCATTTCGCTCACTGCACAGgtgtgtctttctatctttgtatgttttgtcttcatgaagttcttagttgtatcctgggatggatatggaaatgaaccattgggagttacaagagtaatac---
|||||| | |  |  ||||||||||||||||||||||||||||| || ||||| || || ||||| ||||||||||||||  ||   | | || |  |   ||||     || | ||     | |   |   ||   |||   || ||| |     ||   |  ||    |      |   
GAAATGACCAGCAGGGAATACTTGGATGACCAAGATGCTGAAGAACCAGATGATTTTATTATTTCACTCACTGCACAGgtcagtaagttt-tcctgctccttttttagggcaagtagcggccaatatcacattgt--tggccctgcaaaaggcatgtttatatatatttcaacctgtcaaa
















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|15204575|gb|BI427343.1|BI427343
EST:     ACCAAGATGCTGAAGAGCCGGATGACTTCATCATTTCGCTCACTGCACAG                         ATAACACGAAGAGATGAGGAAATGGCTCCTTTTATTTCAAATGCAAAGCGG
genomic: ACCAAGATGCTGAAGAGCCGGATGACTTCATCATTTCGCTCACTGCACAGgtgtgtcttt ... caatccccagATAACACGAAGAGATGAGGAAATGGCTCCTTTTATTTCAAATGCAAAGCGG
EST: gi|254340254|gb|GR858379.1|GR858379
EST:     ACCAAGATGCTGAAGAGCCGGATGACTTCATCATTTCGCTCACTGCACAG                         ATA-CACGA-GAGATGAGGAAATGGCTCCTTTTATTTCAAATGCAAAGCGG
genomic: ACCAAGATGCTGAAGAGCCGGATGACTTCATCATTTCGCTCACTGCACAGgtgtgtcttt ... caatccccagATAACACGAAGAGATGAGGAAATGGCTCCTTTTATTTCAAATGCAAAGCGG
EST: gi|26058666|gb|CA801580.1|CA801580
EST:     ACCAAGATGCTGAAGAGCCGGATGACTTCATCATTTCGCTCACTGCACAG                         ATAACACGAAGAGATGAGGAAATGGCTCCTTTTATTTCAAATGCAAAGCGG
genomic: ACCAAGATGCTGAAGAGCCGGATGACTTCATCATTTCGCTCACTGCACAGgtgtgtcttt ... caatccccagATAACACGAAGAGATGAGGAAATGGCTCCTTTTATTTCAAATGCAAAGCGG
EST: gi|17963254|gb|BM270005.1|BM270005
EST:     ACCAAGATGCTGAAGAGCCGGATGACTTCATCATTTCGCTCACTGCACAG                         ATAACACGAAGAGATGAGGAAATGGCTCCTTTTATTTCAAATGCAAAGCGG
genomic: ACCAAGATGCTGAAGAGCCGGATGACTTCATCATTTCGCTCACTGCACAGgtgtgtcttt ... caatccccagATAACACGAAGAGATGAGGAAATGGCTCCTTTTATTTCAAATGCAAAGCGG
EST: gi|51337373|gb|CO981239.1|CO981239
EST:     ACCAAGATGCTGAAGAGCCGGATGACTTCATCATTTCGCTCACTGCACAG                         ATAACACGAAGAGATGAGGAAATGGCTCCTTTTATTTCAAATGCAAAGCGG
genomic: ACCAAGATGCTGAAGAGCCGGATGACTTCATCATTTCGCTCACTGCACAGgtgtgtcttt ... caatccccagATAACACGAAGAGATGAGGAAATGGCTCCTTTTATTTCAAATGCAAAGCGG
EST: gi|13789586|gb|BG652177.1|BG652177
EST:     CCGGATGACTTCATCATTTCGCTCACTGCACAG                         ATAACACGAAGAGATGAGGAAATGGCTCCTTTTATTTCAAATGCAAAGCGG
genomic: CCGGATGACTTCATCATTTCGCTCACTGCACAGgtgtgtcttt ... caatccccagATAACACGAAGAGATGAGGAAATGGCTCCTTTTATTTCAAATGCAAAGCGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAATGGCAAATACAGAATACTTGGATGACCAAGATGCTGAAGAGCCGGATGACTTCATCATTTCGCTCACTGCACAGgtgtgtctttctatctttgtatgttttgtcttcatgaagttcttagttgtatcctgggatggatatggaaatgaaccattgggagttacaagagtaatac

- - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggatgg