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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATCTCTTGAACTCGGCGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttagaaaggacgagaatgcatggtggctgtaatgatgtttttgttaaagatattgctttatatggatttcctgtgtctgatttgtttacaactta...

Basic information

species Glycine max
transcript GLYMA15G41690.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G41690.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os02g07760.1 (Oryza sativa), 5'ss of exon 11
GTATCTCTTGAACTCGGCGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttagaaaggacgagaatgcatggtggctgtaatgatgttttt-gttaaagatattgctttatatggatttcctg-------tgtctgat--ttgtttacaactta-------------------------------------------
|| ||| | || || || ||||||||||||||||| |||||||||||||| ||| | ||||||||  | ||||| | ||||||  | |||  |  ||| |          |  ||   | ||||| ||     |  ||| ||   || ||| | |||       |   | ||  ||  || ||  |||                                           
GTTTCTTTGGAGCTTGGTGGCAATGCACCTTGCATTGTTTTTGATGATGCAGACATTGATGTTGCCATTAAAGGCAGTgtaagcaaaaaaaaaaaagacttatctaccatttcaacatttttttttgtggtgtactttgtttctcattgatatactgaccaacatacatcatcattaattgcattttatattctattatgatgcatgtttatcaacactacttctgttcag

upper sequence: GLYMA15G41690.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G128114_T01 (Zea mays), 5'ss of exon 11
GTATCTCTTGAACTCGGCGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttagaaaggacgagaatgcatggtggctgtaatgatgtttttgt-taaagatattgctttatatggatttcctgtgtctgatttgtttacaactta--
|| ||| | ||||| || || |||||||||||||| |||||||||||||| ||| | |||||||| || ||||| | ||||||    |          ||  ||  |   |||     |  |    |  ||  ||||    | || |  | ||||  ||    ||  |  |   | |    
GTCTCTTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTTGATGATGCAGACATTGATGTTGCTGTTAAAGGCAGTgtaagactcact---tttacatttatcttctttgtttctttactagcatacaattatataaaatcatctcaagttcccttggtgaatgagggtgacattatct

upper sequence: GLYMA15G41690.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G119482_T01 (Zea mays), 5'ss of exon 11
GTATCTCTTGAACTCGGCGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaag-ttagaaaggacgagaatgcatggtggctgtaatgat--gtttttgttaaagatattgctttatatggatttcctgtgtctgatttgtttacaactta
|| ||  | ||||| || || |||||||||||||| ||||| |||||||| ||| | |||||||| || ||||| | ||||||  |       ||    || | | ||  || || | |     |   || |    || | |  | | |||||     ||| |  |  |||  | ||  | 
GTCTCCTTGGAACTTGGTGGGAATGCACCTTGCATTGTTTTCGATGATGCGGACATTGATGTTGCTGTTAAAGGCAGTgtaagactcacttctacatttat-ctttgtttctttactaaacaaatcaagtcatctctagttccctttgtggatgagg-gtgacatagctgtcaagaatgt-

upper sequence: GLYMA15G41690.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv19s0085g00870.t01 (Vitis vinifera), 5'ss of exon 10
GTATCTCTTGAACTCGGCGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttagaaaggacgagaatgcatggtggctgtaatgatgtttttgttaaagatattgctttatatg-gatttcctgtgtctgatttgtttacaactta
|||||||||||||  ||||| ||||||||||||||||||||||||||  | |||||||  || |||||||||  || ||||||| |||       | |     || |     |  |||||   ||| ||   ||  |  |  ||||  ||| |   |  |  |  | ||       || 
GTATCTCTTGAACCTGGCGGTAATGCACCTTGCATAGTTTTTGATGACACGGACCTGGGCGTGGCAGTAAAATCAATTgtaagtcagagtaatacacagaaagtgatctggatcttgatggaattgatatt-atcctcatcaatatctgatatatagctttgggatagtgcttgggttt

upper sequence: GLYMA15G41690.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv19s0085g00880.t01 (Vitis vinifera), 5'ss of exon 11
GTATCTCTTGAACTCGGCGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttagaaaggacgagaatgcatggtggctgtaatgatgtttttgttaaagatattgctttatatggatttcctgtgtctgatttgtttacaactta----
|||||||| ||||| || || ||||||||||||||| | ||||| ||||| |||||||| || |||||||||||  |||||||||||||         |   ||  ||  | || || ||   ||    || | ||   ||| | ||  || | || ||    | | ||||  || |     
GTATCTCTGGAACTTGGTGGTAATGCACCTTGCATAATCTTTGACGATGCAGACCTGGAGGTGGCAGTAAAAGGGGCTgtaagttagaattattccctagctatcctgattatactgttggcattacataatagat--gtttgt-tgagttacatgagta-attctatttagcacatcgaaa

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|151400125|gb|EV269939.1|EV269939
EST:     CTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT                         CTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGA
genomic: CTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttaga ... ttggttgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGA
EST: gi|151404401|gb|EV274211.1|EV274211
EST:     CTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACT                         CTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGA
genomic: CTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttaga ... ttggttgcagCTTGCAGCAAAGTTCCGTAACAGTGGACAAACATGTGTTTGTGCAAATAGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATCTCTTGAACTCGGCGGCAATGCACCTTGCATAGTTTTTGATGATGCTGACCTGGATGTTGCAGTAAAAGGAACTgtaagttagaaaggacgagaatgcatggtggctgtaatgatgtttttgttaaagatattgctttatatggatttcctgtgtctgatttgtttacaactta

- - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA