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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGGGAAGGATGTTGTGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTGgtccgtttcctttgctatcatgtttccacctaatcaataaaaatattctgttttctaactacactttttatgcatatgcag

Basic information

species Glycine max
transcript GLYMA19G24620.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G24620.2 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os01g70960.1 (Oryza sativa), 5'ss of exon 7
ATGGGGAAGGATGTTGTGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTGgt--ccgtttc----ctttgctatcatgtttccacctaatc--aataaaaatattctgttttctaactacactttttatgcatatgcag
||||| || |||||||| || |||||    ||||| || || ||||||||||||||||||||||||||  || | |     | |  || |    ||  |  ||| |   | |   |||  |||  |||||   |||     || |||        
ATGGGAAAAGATGTTGTCTCGTTCTTGTCATGGGCGGCGGAGCCTGAGATGGAAGAGAGAAAACTGgtaaccctcttggaacctccctgtagaattgtcctctatttctactgttaattgtctaatttcttcatactggaattgtgctag-----

upper sequence: GLYMA19G24620.2 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os05g23620.1 (Oryza sativa), 5'ss of exon 8
ATGGGGAAGGATGTTGTGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTGgtccgtttcctttgctatcatgtttccacctaat-caataaaaatattctgttttctaa---ctacactttttatgcatatgcag
||||| |||||||| || || |||||    ||||| || |||||||||||||||||||| ||||||||   |   ||   || |  |   |  |  || | |  | ||       | ||| ||||   | ||    | ||     ||| ||
ATGGGCAAGGATGTCGTTTCGTTCTTGTCATGGGCAGCTGAACCTGAGATGGAAGAGAGGAAACTGgta-atcagctcaacttttgtccatttatatattactttcaattcgcaatatttcctaataccaacctactctaatttgatgtag
















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|298178076|gb|HO027459.1|HO027459
EST:     TGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTG                         ATGGGATTTAAATGGATATTTGTACTGTCACTGGCACTACTTCAGGCTGCC
genomic: TGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTGgtccgtttcc ... gcatatgcagATGGGATTTAAATGGATATTTGTACTGTCACTGGCACTACTTCAGGCTGCC
EST: gi|208300265|gb|GE098924.1|GE098924
EST:     TGTCATTCTTAACTTGGGCCGCCGAACCCGAGATGGAAGAGAGAAAACTG                         ATGGGATTTAAATGGATATTTGTACTGTCATTGGCACTACTTCA
genomic: TGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTGgtccgtttcc ... gcatatgcagATGGGATTTAAATGGATATTTGTACTGTCACTGGCACTACTTCA
EST: gi|192304183|gb|FG996379.1|FG996379
EST:     TGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTG                         ATGGGATTTAAATGGATATTTGTACTGTCACTGGCACTACTTCAGGCTGCC
genomic: TGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTGgtccgtttcc ... gcatatgcagATGGGATTTAAATGGATATTTGTACTGTCACTGGCACTACTTCAGGCTGCC
EST: gi|193577061|gb|FK535668.1|FK535668
EST:     AAGAGAGAAAACTG                         ATGGGATTTAAATGGATATTTGTACTGTCA
genomic: AAGAGAGAAAACTGgtccgtttcc ... gcatatgcagATGGGATTTAAATGGATATTTGTACTGTCA
EST: gi|105633944|gb|DW247307.1|DW247307
EST:     TGTCATTCTTAACTTGGGCCGCCGAACCCGAGATGGAAGAGAGAAAACTG                         ATGGGATTTAAATGGATATTTGT
genomic: TGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTGgtccgtttcc ... gcatatgcagATGGGATTTAAATGGATATTTGT
EST: gi|151405823|gb|EV275638.1|EV275638
EST:     TGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTG                         ATGGGATTTAAATGGATATTTGTACTGTCACTGGCACTACTTCAGGCTGCC
genomic: TGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTGgtccgtttcc ... gcatatgcagATGGGATTTAAATGGATATTTGTACTGTCACTGGCACTACTTCAGGCTGCC
EST: gi|13240163|gb|BG359472.1|BG359472
EST:     TGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTG                         ATGGGATTTAAATGGATATTTGTACTGTCACTGGCACTACTTCACGCTGCC
genomic: TGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTGgtccgtttcc ... gcatatgcagATGGGATTTAAATGGATATTTGTACTGTCACTGGCACTACTTCAGGCTGCC
EST: gi|254330991|gb|GR842256.1|GR842256
EST:     TGTCATTCTTAACTTGGGCCGCCGAACCCGAGATGGAAGAGAGAAAACTG                         ATGGGATTTAAATGGATATTTGTACTGTCATTGGCACTACTTCAG-CTGCC
genomic: TGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTGgtccgtttcc ... gcatatgcagATGGGATTTAAATGGATATTTGTACTGTCACTGGCACTACTTCAGGCTGCC
EST: gi|193527999|gb|FK483501.1|FK483501
EST:     TGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTG                         ATGGGATTTAAATGGATATTTGTACTGTCACTGGCACTACTTCAGGCTGCC
genomic: TGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTGgtccgtttcc ... gcatatgcagATGGGATTTAAATGGATATTTGTACTGTCACTGGCACTACTTCAGGCTGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGGGGAAGGATGTTGTGTCATTCTTAAGTTGGGCCGCCGAACCTGAGATGGAAGAGAGAAAACTGgtccgtttcctttgctatcatgtttccacctaatcaataaaaatattctgttttctaactacactttttatgcatatgcag

- - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA