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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTGTTCAGATACGTGGCCTTGCAAAGACATATCCTGGCACACGTAGCATTGGTTGCTGCTTTAAATGTAAAAGAACTTCACCTTACAATGCAGTTAAGgtaaagcatttcttattaatttttcatgcaacaattttctggatcattaattcagatatgatattaaagctatgaatgagcagccatgattttgattgtt...

Basic information

species Glycine max
transcript GLYMA06G20360.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G20360.2 (Glycine max), 5'ss of exon 8
lower sequence: AT5G61730.1 (Arabidopsis thaliana), 5'ss of exon 8
---TGCTGTTCAGATACGTGGCCTTGCAAAGACATATCCTGGCACACGTAGCATTGGTTGCTGCTTTAAATGTAAAAGAACTTCACCTTACAATGCAGTTAAGgtaaagcatttcttattaat------ttttcatgcaacaattttctggatcatt--aattcagatatga-tattaaagctatga-atgagcagccatgattttgattgtt--------------
   ||| |||||||||| ||| |||||||||||||||||||| |||   |   |||| ||||||   ||||| |  | |||||| ||||   |||| || ||||||      ||     ||||       |||     || |  || || | ||||   | || |||||  | | ||| | |  | | ||            | ||||||  |              
CATTGCAGTTCAGATACATGGTCTTGCAAAGACATATCCTGGAACAACAAAGCTTGGATGCTGC---AAATGCACCAAAACTTCGCCTTTTCATGCTGTAAAGgtatgttgctttccgataatgtatggcttttgccaaagatgttcctagctcatgtgacttgagataaaagtgttacaacagttacatttattattcaactattgattcattgaaaaaaattcag
















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|193323245|gb|FK292505.1|FK292505
EST:     TTGGTTGCTGCTTTAAATGT-AAAGAACTTCACCTTCCAATGCAGTTAAG                         GGTTTGTGGGTGAACTTTGCAAAGGATCAGTTATTTTGTCTTCTAGGACCC
genomic: TTGGTTGCTGCTTTAAATGTAAAAGAACTTCACCTTACAATGCAGTTAAGgtaaagcatt ... ttattttcagGGTTTGTGGGTGAACTTTGCAAAGGATCAGTTATTTTGTCTTCTAGGACCC
EST: gi|193304296|gb|FK270325.1|FK270325
EST:     TTGGTTGCTGCTTTAAATGTAAAAGAACTTCACCTTACAATGCAGTTAAG                         GGTTTGTGGGTGAACTTTGCAAAGGATCAGTTATTTTG
genomic: TTGGTTGCTGCTTTAAATGTAAAAGAACTTCACCTTACAATGCAGTTAAGgtaaagcatt ... ttattttcagGGTTTGTGGGTGAACTTTGCAAAGGATCAGTTATTTTG
EST: gi|254338644|gb|GR849955.1|GR849955
EST:     TTGGTTGCTGCTTTAAATGTAAAAGAACTTCACCTTACAATGCAGTTAAG                         GGTTTGTGGGTGAACTTTGCAAAGGATCAGTTATTTTGTCTTCTAGGACCC
genomic: TTGGTTGCTGCTTTAAATGTAAAAGAACTTCACCTTACAATGCAGTTAAGgtaaagcatt ... ttattttcagGGTTTGTGGGTGAACTTTGCAAAGGATCAGTTATTTTGTCTTCTAGGACCC
EST: gi|15662847|gb|BI700218.1|BI700218
EST:     TTGGTTGCTGCTTTAAATGTAAAAGAACTTCACCTTACAATGCAGTTAAG                         GGTTTGTGGGTGAACTTTGCAAAGGATCAGTTATTTTGTCTTCTAGGACCC
genomic: TTGGTTGCTGCTTTAAATGTAAAAGAACTTCACCTTACAATGCAGTTAAGgtaaagcatt ... ttattttcagGGTTTGTGGGTGAACTTTGCAAAGGATCAGTTATTTTGTCTTCTAGGACCC
EST: gi|208188811|gb|GD981829.1|GD981829
EST:     CTTTAAATGTAAAAGAACTTCACCTTACAATGCAGTTAAG                         GGTTTGTGGGTGAACTTTGCAAAGGATCAGTTATTTTGTCTTCTAGGACCC
genomic: CTTTAAATGTAAAAGAACTTCACCTTACAATGCAGTTAAGgtaaagcatt ... ttattttcagGGTTTGTGGGTGAACTTTGCAAAGGATCAGTTATTTTGTCTTCTAGGACCC
EST: gi|23062967|gb|BU578537.1|BU578537
EST:     TTGGTTGCTGCTTTAAATGTAAAAGAACTTCACCTTACAATGCAGTTAAG                         GGTTTGTGGGTGAACTTTGCAAAGGATCAGTTATTTTGTCTTCTAGGACCC
genomic: TTGGTTGCTGCTTTAAATGTAAAAGAACTTCACCTTACAATGCAGTTAAGgtaaagcatt ... ttattttcagGGTTTGTGGGTGAACTTTGCAAAGGATCAGTTATTTTGTCTTCTAGGACCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCTGTTCAGATACGTGGCCTTGCAAAGACATATCCTGGCACACGTAGCATTGGTTGCTGCTTTAAATGTAAAAGAACTTCACCTTACAATGCAGTTAAGgtaaagcatttcttattaatttttcatgcaacaattttctggatcattaattcagatatgatattaaagctatgaatgagcagccatgattttgattgtt

- - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC