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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGTATGGACAGTTGGGTTATGAATGTGGTTCCTGTTAGTGGTCCAAATACCTTGCCTGTCATATATGACCGTGGGCTGATTGGAGTTATGCATGACTGgtattttattgagcttattttattaaacacatactaaatgacctgtaccaatattttgtgaacgtgtcagaatgttgtaatatttctctatgatttctaattcag

Basic information

species Glycine max
transcript GLYMA02G41770.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G41770.1 (Glycine max), 5'ss of exon 7
lower sequence: AT2G39750.1 (Arabidopsis thaliana), 5'ss of exon 7
AGAGTATGGACAGTTGGGTTATGAATGTGGTTCCTGTTAGTGGTCCAAATACCTTGCCTGTCATATATGACCGTGGGCTGATTGGAGTTATGCATGACTGgtattttattgagcttattttattaaacacatactaaatgacctgtaccaatattttgtgaacgtgtcagaatgttgtaatatttctctatgatttctaattcag
| |   | ||  | |||||| | |  ||||||||||| ||||| || || || ||||||||||| ||||||||||| ||| | ||||| ||||| || ||||| | | ||   ||||   | |   | |   | | |   |  || |    |||  |   ||| |   | | |  ||    || |     |  | |||  |    
ATAAACTCGATTGCTGGGTTCTAAGCGTGGTTCCTGTCAGTGGGCCTAACACATTGCCTGTCATTTATGACCGTGGACTGTTAGGAGTGATGCACGATTGgtactgttttctccttagaatctgtcatatgaaatcag-aatttggaatcctatagttgaaaccttggaaattagtgattcatcttgtccttttctctgtt----

upper sequence: GLYMA02G41770.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv13s0019g02250.t01 (Vitis vinifera), 5'ss of exon 7
AGAGTATGGACAGTTGGGTTATGAATGTGGTTCCTGTTAGTGGTCCAAATACCTTGCCTGTCATATATGACCGTGGGCTGATTGGAGTTATGCATGACTGgtattttattgagcttattttattaaacacatacta---aatgacctgta--ccaatattttgtgaacgtgtcagaatgttgtaatatttctctatgatttctaattcag----------
  |   | ||  | |||||| | ||||| |||||||| || || || ||||||||||||||||||||||| ||||| || || |||||||||||||| ||||| |||       ||| ||   ||| || || |||     |||  | |     | |  ||    |   |||  |||| |       |||   ||| ||   |  |  |           
GAAAAGTTGATTGCTGGGTTCTTAATGTTGTTCCTGTGAGCGGGCCCAATACCTTGCCTGTCATATATGATCGTGGACTCATAGGAGTTATGCATGATTGgtaattttaactatttaattagctaaccatattctattggttgaattttcatttagtgcttcccaatattgtttgaatttcactg-gtttaagtataatgagttgtataatactttccag
















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|298172976|gb|HO019975.1|HO019975
EST:     ACCTTGCCTGTCATATATGACCGTGGGCTGATTGGAGTTATGCATGACTG                         GTGTGAACCATTTGACACCTACCCGAGAACCTATGATTTACTGCATGCTGC
genomic: ACCTTGCCTGTCATATATGACCGTGGGCTGATTGGAGTTATGCATGACTGgtattttatt ... tctaattcagGTGTGAACCATTTGACACCTACCCGAGAACCTATGATTTACTGCATGCTGC
EST: gi|17519689|gb|BM188731.1|BM188731
EST:     GCTGATTGGAGTTATGCATGACTG                         GTGTGAACCATTTGACACCTACCCGAGAACCTATGATTTACTGCATGCTGC
genomic: GCTGATTGGAGTTATGCATGACTGgtattttatt ... tctaattcagGTGTGAACCATTTGACACCTACCCGAGAACCTATGATTTACTGCATGCTGC
EST: gi|298173781|gb|HO017117.1|HO017117
EST:     ACCTTGCCTGTCATATATGACCGTGGGCTGATTGGAGTTATGCATGACTG                         GTGTGAACCATTTGACACCTACCCGAGAACCTATGATTTACTGCATGCTGC
genomic: ACCTTGCCTGTCATATATGACCGTGGGCTGATTGGAGTTATGCATGACTGgtattttatt ... tctaattcagGTGTGAACCATTTGACACCTACCCGAGAACCTATGATTTACTGCATGCTGC
EST: gi|151400792|gb|EV270606.1|EV270606
EST:     ACCTTGCCTGTCATATATGACCGTGGGCTGATTGGAGTTATGCATGACTG                         GTGTGAACCATTT
genomic: ACCTTGCCTGTCATATATGACCGTGGGCTGATTGGAGTTATGCATGACTGgtattttatt ... tctaattcagGTGTGAACCATTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGTATGGACAGTTGGGTTATGAATGTGGTTCCTGTTAGTGGTCCAAATACCTTGCCTGTCATATATGACCGTGGGCTGATTGGAGTTATGCATGACTGgtattttattgagcttattttattaaacacatactaaatgacctgtaccaatattttgtgaacgtgtcagaatgttgtaatatttctctatgatttctaattcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG