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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGTCCTTGGGAGCGATAATGTATGAAATGTTAGTGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAGgtaatgtctggatcaactgttgatgaattgggatgaatattgtatagattgaggtttgacacatgtaggatgttgactacattgaattttggtaggcacc...

Basic information

species Glycine max
transcript GLYMA10G32480.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G32480.1 (Glycine max), 5'ss of exon 7
lower sequence: AT4G14350.3 (Arabidopsis thaliana), 5'ss of exon 8
GTGGTCCTTGGGAGCGATAATGTATGAAATGTTAGTGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAGgtaatgtctggatcaactgttgatgaattgggatgaatattgta--tagattgaggttt----gacacatgtaggatgttgactacattgaattttggtaggcacc---------------------------------------------------
||||||  | || || || |||||||||||| | ||||||| ||||||||||||||||||||| ||||||   |||||||| ||||||||   |  ||    | ||||    ||    | ||||||| |   ||| ||  | ||    | |  |  |   || ||       ||| || |   | |  |                                                     
GTGGTCTCTTGGCGCCATTATGTATGAAATGCTTGTGGGGTTTCCGCCCTTTTATTCAGATGACCCAATGACAACTTGTAGGAAGgtaattaatccattcctttttgaatctttcattttaatattgaaggcagactggcgatttcaagtcttacatttaattttagtctttttgtatctctttggtaattctaatgtggaaacttacctcttctcgattcattatcttcccccttatgcag

upper sequence: GLYMA10G32480.1 (Glycine max), 5'ss of exon 7
lower sequence: AT3G23310.1 (Arabidopsis thaliana), 5'ss of exon 8
GTGGTCCTTGGGAGCGATAATGTATGAAATGTTAGTGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAGgtaatgtctggatcaactgttgatgaattgggatgaatattgtatagattgaggtttgacacatgtaggat--gttgactacattgaattttggtaggcacc----------------------------------------------------
||||||  | || ||||| |||||||||||| | ||||||| ||| || ||||||||||| || ||||||   |||||||||||||||         |||  | |||  || ||    |   |  |  |    | |   | | | |  | |    |   || | | | ||||  ||     |  |||                                                    
GTGGTCACTTGGTGCGATCATGTATGAAATGCTTGTGGGGTTTCCACCATTTTATTCAGACGAGCCAATGACAACTTGTAGAAAGgtaccaatcc--tcactttttgtggactttaactctgttctagacttctagtaatctcaaatttttgcattcgatttagttc-ttgatcttctaatgatacctctttggtaatatatgcacatctctgaatacttgttattgtttttaatgcag

upper sequence: GLYMA10G32480.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv05s0049g01220.t01 (Vitis vinifera), 5'ss of exon 7
GTGGTCCTTGGGAGCGATAATGTATGAAATGTTAGTGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAGgtaatgtctggatcaactgttgatgaattgggatgaatat-tgtatagattgaggtttgacacatgtaggatgttgactacattgaattttggtaggcacc
||||||  | || || || ||||| |||||| | ||||| ||||| || ||||||||||||||||| |||   |||||||| |||||| |   ||||    ||| |  ||||    | ||  | | |  ||   |  |   |||   ||   ||  |||  | | | |      ||   | ||   
GTGGTCTCTTGGTGCTATCATGTACGAAATGCTTGTGGGATATCCACCTTTTTATTCAGATGAACCTATGACAACTTGTAGGAAGgtagttcttggaatg-ctgatcttgaaagatgttgtctgtgtaaatgtttctacaattgcaccaatgagtttgtaaaatgcttatctccttcacatgctaa

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|13563179|gb|BG551399.1|BG551399
EST:     TGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAG                         ATAGTAAATTGGAGAAGTTATTTAAAATTTCCAGAAGA-GTTAAACTTTCG
genomic: TGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAGgtaatgtctg ... aaacttgcagATAGTAAATTGGAGAAGTTATTTAAAATTTCCAGAAGAAGTTAAACTTTCG
EST: gi|298165885|gb|HO008856.1|HO008856
EST:     TGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAG                         ATAGTAAATTGGAGAAATTATTTAAAATTTCCAGAAGAAGTTAAAATTTCG
genomic: TGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAGgtaatgtctg ... aaacttgcagATAGTAAATTGGAGAAGTTATTTAAAATTTCCAGAAGAAGTTAAACTTTCG
EST: gi|192294765|gb|FG986614.1|FG986614
EST:     TGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAG                         ATAGTAAATTGGAGAAGTTATTTAAAATTTCCAGAAGAAGTTAAACTTTCG
genomic: TGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAGgtaatgtctg ... aaacttgcagATAGTAAATTGGAGAAGTTATTTAAAATTTCCAGAAGAAGTTAAACTTTCG
EST: gi|16346917|gb|BI972512.1|BI972512
EST:     TGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAG                         ATAGTAAATTGGAGAAGTTATTTAAAATTTCCAGAAGAAGTTAAACTTTCG
genomic: TGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAGgtaatgtctg ... aaacttgcagATAGTAAATTGGAGAAGTTATTTAAAATTTCCAGAAGAAGTTAAACTTTCG
EST: gi|15815537|gb|BI787812.1|BI787812
EST:     TGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAG                         ATAGTAAATTGGAGAAGTTATTTAAAATTTCCAGAAGAAGTTAAACTTTCG
genomic: TGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAGgtaatgtctg ... aaacttgcagATAGTAAATTGGAGAAGTTATTTAAAATTTCCAGAAGAAGTTAAACTTTCG
EST: gi|298165881|gb|HO008852.1|HO008852
EST:     TGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAG                         ATAGTAAATTGGAGAAATTATTTAAAATTTCCAGAAGAAGTTAAAATTTCG
genomic: TGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAGgtaatgtctg ... aaacttgcagATAGTAAATTGGAGAAGTTATTTAAAATTTCCAGAAGAAGTTAAACTTTCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGGTCCTTGGGAGCGATAATGTATGAAATGTTAGTGGGGTATCCGCCCTTTTATTCAGATGAACCAATGTTGACTTGTAGAAAGgtaatgtctggatcaactgttgatgaattgggatgaatattgtatagattgaggtttgacacatgtaggatgttgactacattgaattttggtaggcacc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG