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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATGTGAATCTGAAGGTGCCAATAAGATGATAGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATGgtaagttattacagacactttctttcaatctttttgatcctctcctgagtatttttgaagtgtggaaagtattcatctacag

Basic information

species Glycine max
transcript GLYMA10G38590.1
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G38590.1 (Glycine max), 5'ss of exon 18
lower sequence: AT5G51820.1 (Arabidopsis thaliana), 5'ss of exon 18
GAATGTGAATCTGAAGGTGCCAATAAGATGATAGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATGgt-aagttattacagacactttctttcaatctttttgatcctctcctgagtatttttgaagtgtggaa-agtattcatct-acag
||||||||||||||||| |||||||| ||||| || || ||  |||| || ||||||||||||||| | |||||    |||||| | |||  | |  | |  |||     || ||| || | |         ||||||    ||    || |   ||||||| ||||
GAATGTGAATCTGAAGGAGCCAATAAAATGATCGAGTATCTTAGAGAAATCTTGTCTAAGAGCAAGGCCGGTGACGTTTATGgttaggttcatcccaatatattc-----atttttctg-tacgtaataacttattttcactgttcataacaactttcatctcacag

upper sequence: GLYMA10G38590.1 (Glycine max), 5'ss of exon 18
lower sequence: Vv16s0022g02320.t01 (Vitis vinifera), 5'ss of exon 18
GAATGTGAATCTGAAGGTGCCAATAAGATGATAGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATGgtaagttattacagacactttctttcaatctttttgatcctctcctgagtatttttgaagtgtggaaagtattcatctacag---
|||||||||||||||||||||||||| ||||||||||| ||  ||||| |  | |||||||||||| | |||||  |||||||||||||   ||| | |  || | | ||||  |   | ||| || ||| ||   || |  ||   |  |  ||    |  |    
GAATGTGAATCTGAAGGTGCCAATAAAATGATAGAATATCTTAGAGATTTGGTCTCTAAGAGCAAGGCAGGTGAAAAGTATGgtaagtt--cacaaaaatattttgtaaatccatcaaaacctttcatga-taacattcagatgctaattgctttttggtttaatag
















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|120494406|gb|EH222573.1|EH222573
EST:     AGAATACCTACTAGATATTTAGTCTAAGAGCAAGCCTGGTGATCAGTATG                         GAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
genomic: AGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATGgtaagttatt ... tcatctacagGAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
EST: gi|4260048|gb|AI416544.1|AI416544
EST:     AGAGCAAGCCTGGTGATCAGTATG                         GAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
genomic: AGAGCAAGCCTGGTGATCAGTATGgtaagttatt ... tcatctacagGAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
EST: gi|57574855|gb|CX547830.1|CX547830
EST:     AGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATG                         GAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
genomic: AGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATGgtaagttatt ... tcatctacagGAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
EST: gi|58020248|gb|CX706990.1|CX706990
EST:     AGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATG                         GAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
genomic: AGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATGgtaagttatt ... tcatctacagGAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
EST: gi|192333011|gb|FK024660.1|FK024660
EST:     AGAATACCTCCGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATG                         GAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
genomic: AGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATGgtaagttatt ... tcatctacagGAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
EST: gi|120494776|gb|EH222943.1|EH222943
EST:     AGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATG                         GAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
genomic: AGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATGgtaagttatt ... tcatctacagGAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
EST: gi|58015952|gb|CX702694.1|CX702694
EST:     AGAATACCTACGAGATATTTTGTCTAAGACCAAGCCTGGTGATCAGTATG                         GAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
genomic: AGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATGgtaagttatt ... tcatctacagGAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
EST: gi|15203242|gb|BI426010.1|BI426010
EST:     AGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATG                         GAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
genomic: AGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATGgtaagttatt ... tcatctacagGAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
EST: gi|120494261|gb|EH222428.1|EH222428
EST:     AGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATG                         GAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
genomic: AGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATGgtaagttatt ... tcatctacagGAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
EST: gi|10231645|gb|BE800533.1|BE800533
EST:     CTAAGAGCAAGCCTGGTGATCAGTATG                         GAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT
genomic: CTAAGAGCAAGCCTGGTGATCAGTATGgtaagttatt ... tcatctacagGAAGTTATGTTCTCCAGTTTGCAGATGATTTTACATACACCGATCCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAATGTGAATCTGAAGGTGCCAATAAGATGATAGAATACCTACGAGATATTTTGTCTAAGAGCAAGCCTGGTGATCAGTATGgtaagttattacagacactttctttcaatctttttgatcctctcctgagtatttttgaagtgtggaaagtattcatctacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG