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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGATCCACATAATGACCCAAATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTCgtaagttgtattttccaatgtagtattagtgtgacactttagtagcatatagttagccatatcttattgttgccatcttctaacag

Basic information

species Glycine max
transcript GLYMA01G38120.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G38120.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv04s0023g01580.t01 (Vitis vinifera), 5'ss of exon 5
ATGATCCACATAATGACCCAAATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTCgtaagttgta----ttttccaatgtagtattagtgtgacactttagtagcatatagttagcca---tatcttattgttgccatcttcta-acag
|||||||| |||||||||||||| | |||||||| |||||||||||||||||||| ||||  || || |||  ||    ||   |  | ||  |||  | |      |    |  ||  |  |  |     ||| ||||| ||   || || |  ||||
ATGATCCAAATAATGACCCAAATATTTCGGGAGACCCATACAAGACATTGTTTGTAGCTAGGCTTgtgagtattaatgattacactctttatcatttttctattttctatccattattaaactcactgatttattttattttttatattttttttacag
















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|213590261|gb|DB963838.1|DB963838
EST:     ACCCAAATGTGTCGGGAGATCCATACNAGACATTGTTTGTGGCTAAACTC                         AGTTACGAGACCACTGAGAGCAGAATCAAAAGGGAGTTTGAGT
genomic: ACCCAAATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTCgtaagttgta ... cttctaacagAGTTACGAGACCACTGAGAGCAGAATCAAAAGGGAGTTTGAGT
EST: gi|209698701|gb|BW660702.1|BW660702
EST:     ACCCAAATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTC                         AGTTACGAGACCACTGAGAGCAGAATCAAAAGGGAGTTTGAGTC
genomic: ACCCAAATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTCgtaagttgta ... cttctaacagAGTTACGAGACCACTGAGAGCAGAATCAAAAGGGAGTTTGAGTC
EST: gi|213613578|gb|DB963280.1|DB963280
EST:     ACCCAAATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTC                         AGTTACGAGACCACTGAGAGCAGAATCAAAAGGGAGTTTGAGTCATATGGT
genomic: ACCCAAATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTCgtaagttgta ... cttctaacagAGTTACGAGACCACTGAGAGCAGAATCAAAAGGGAGTTTGAGTCATATGGT
EST: gi|209720113|gb|BW651142.1|BW651142
EST:     ACCCAAATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTC                         AGTTACGAGACCACTGAGAGCAGAAT
genomic: ACCCAAATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTCgtaagttgta ... cttctaacagAGTTACGAGACCACTGAGAGCAGAAT
EST: gi|213589944|gb|DB969681.1|DB969681
EST:     ACCCANATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTC                         AGTTACGAGAC
genomic: ACCCAAATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTCgtaagttgta ... cttctaacagAGTTACGAGAC
EST: gi|209710662|gb|BW665074.1|BW665074
EST:     ACCCAAATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTC                         AGTTACGAGACCACTGAGAGCAGAATCAAAAGGGAGTTTGAGTCATATGGT
genomic: ACCCAAATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTCgtaagttgta ... cttctaacagAGTTACGAGACCACTGAGAGCAGAATCAAAAGGGAGTTTGAGTCATATGGT
EST: gi|213601327|gb|DB956661.1|DB956661
EST:     ACCCANATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTC                         AGTTACGAGACCACTGAGAGCAGAATCAAAAGGGAGTTTGAGTCATATGGT
genomic: ACCCAAATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTCgtaagttgta ... cttctaacagAGTTACGAGACCACTGAGAGCAGAATCAAAAGGGAGTTTGAGTCATATGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGATCCACATAATGACCCAAATGTGTCGGGAGATCCATACAAGACATTGTTTGTGGCTAAACTCgtaagttgtattttccaatgtagtattagtgtgacactttagtagcatatagttagccatatcttattgttgccatcttctaacag

- - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - GAGATC