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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCAACATTGCGAATCCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcatcttcaccattttaattttccattacttgtgttcataggaagaaataaatgaaaaatgtcggagttttaatctattttccctttgttgtgt...

Basic information

species Glycine max
transcript GLYMA15G08210.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G08210.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 2
TTCAACATTGCGAATCCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatt-tcatcttcaccattttaattttccattacttgtgttcatag-gaagaaataaatgaaaaatgtcggagttttaatctattttccctttgttgtgt
|||||||| ||||| || ||||| || || ||||||||||| ||||||||||| |||| |||||||| | | |  ||  | ||  |      ||   ||  ||      |||    ||| |    ||      || | |     ||||        |  |  |||  
TTCAACATCGCGAACCCGACCACCGGGTGCCAGAAGAAGCTCGAGATCGATGACGACCAGAAGCTgtgagtattctcgccgccgctcccccgtttgtttcgtttccccaatattagagagagtggtgttggtagtggcaagccgaatcagcgcgaacccttgtgt--

upper sequence: GLYMA15G08210.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os03g27260.1 (Oryza sativa), 5'ss of exon 2
TTCAACATTGCGAATCCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcatcttcaccattttaattttccattacttgtgttcataggaagaaataaatgaaaaatgtcggagttttaatcta--ttttccctttgttgtgt
|||||||| || || || ||||| || || ||||||||||| ||||||||||| |||| |||||||| | | |  || |  |  | |   | |  ||  ||  | |     | ||    |  | ||    |  |   || ||||||||  || |||  | | |   |
TTCAACATCGCCAACCCGACCACCGGGTGCCAGAAGAAGCTCGAGATCGATGACGACCAGAAGCTgtgagtgctcctccttctctctctctcttgat-gctgatctgttctgaaatgcgtgga-gatctcttgcatcgtgttaatctagcttgtccgctcggtcctt

upper sequence: GLYMA15G08210.1 (Glycine max), 5'ss of exon 2
lower sequence: AT4G31700.1 (Arabidopsis thaliana), 5'ss of exon 2
TTCAACATTGCGAATCCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcatcttcaccattttaattttccattacttgtgttc-ataggaagaaataaat-gaaaaatgtcggagttttaatctattt-tccctttgttgtgt
|||||| |||||||||| || ||||| || ||||||||||| |||||||| ||||||| ||| ||||||  |  |  |   |  ||| || |||  | | || |  |  |||    |   ||  | |  | || |     ||    | | | | |  |  ||||    
TTCAACGTTGCGAATCCAACTACTGGATGCCAGAAGAAGCTCGAGATCGACGATGACCAGAAACTgtaagattttgcttctctgtttcatcttcattcatttttaatagatatttcgtgctaggttgccagatctattgattggtgtttgtatatatcactgtta---

upper sequence: GLYMA15G08210.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv18s0001g06290.t01 (Vitis vinifera), 5'ss of exon 2
TTCAACATTGCGAATCCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcatcttcaccattttaattttccattacttgtgttcataggaagaaataaatgaaaaatgtcggagtt-ttaatctattttccctttgttgtgt--
||||| || |||||||| ||||| || || ||||||||||| ||||| || ||||||| ||| |||||| | |   ||      || | | |||   ||  ||  || | |      | | ||| |    ||     |||  |  ||| | || | ||  || | |  
TTCAATATCGCGAATCCGACCACAGGATGCCAGAAGAAGCTTGAGATTGACGATGACCAGAAACTgtaagtgc---ttacttgattcagtgttctcatatatggattaaaatatgtgattgaatcattcttggttttgttgcttttctttctttctttctttctttct

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|192326140|gb|FK016257.1|FK016257
EST:     CTCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|13251887|gb|BG362790.1|BG362790
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|193672748|gb|FK615478.1|FK615478
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGGTCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|10709860|gb|BF009584.1|BF009584
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|298172139|gb|HO021731.1|HO021731
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|192303339|gb|FG995633.1|FG995633
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|208091029|gb|GD886666.1|GD886666
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGCGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|8826310|gb|BE210040.1|BE210040
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|22525238|gb|BU084049.1|BU084049
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|213601201|gb|DB964680.1|DB964680
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|18730661|gb|BM526007.1|BM526007
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|13181588|gb|BG352928.1|BG352928
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|298193972|gb|HO040620.1|HO040620
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|192327154|gb|FK015546.1|FK015546
EST:     GAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: GAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|192332916|gb|FK025013.1|FK025013
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|20811812|gb|BQ296290.1|BQ296290
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|4313890|gb|AI461009.1|AI461009
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|5058304|gb|AI736780.1|AI736780
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|6501870|gb|AW203229.1|AW203229
EST:     GAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: GAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|6566557|gb|AW234200.1|AW234200
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|18735629|gb|BM528877.1|BM528877
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
EST: gi|17023205|gb|BM094239.1|BM094239
EST:     CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCT                         ACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT
genomic: CCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcat ... ttaattgcagACGAGCATTTTGGGACAAGAGGATCTCACAAGAGGTTGTTGGTGATGCTCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCAACATTGCGAATCCCACCACTGGTTGTCAGAAGAAGCTGGAGATCGATGATGACCTGAAGCTgtaatttcatcttcaccattttaattttccattacttgtgttcataggaagaaataaatgaaaaatgtcggagttttaatctattttccctttgttgtgt

- - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgaaa