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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCATGTATATTCTCTATTGTTGCCATGATTGTGGGAAGCGATGAAATTCAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCACgtaaggcttcctcttctgtccgagtcaaaattaattgttcacactttctagaagaaggagtttgtactaattttattattccttttatctgtag

Basic information

species Glycine max
transcript GLYMA08G01990.3
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G01990.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv02s0025g00130.t01 (Vitis vinifera), 5'ss of exon 6
TTGCATGTATATTCTCTATTGTTGCCATGATTGTGGGAAGCGATGAAATTCAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCACgtaaggcttcctcttc-tgtccgagtcaaaattaattgttcacactttctagaagaaggagtttgtactaattttattattccttttatctgtag
| ||||| ||||| || || || || |||||||| ||||| |||||||||||||||||||||||||| || ||||||||||||||  | || || |||||||||||||| || ||| |  ||       || |||| | | |     |    |   |  | | ||  || | | | | |||   ||  | |||||
TCGCATGCATATTTTCCATAGTGGCAATGATTGTTGGAAGTGATGAAATTCAAGAGGCTTCTCAGTTACTATCTTGTTTGGCTGATATGGTATATTGCACgtaaggctttcttttcctaccctctattgaactaatggctaagtgaattgtaagacatcattctgatcttactgtttgattttgtt--tttgtag
















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|207800546|gb|GD774585.1|GD774585
EST:     CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCAC                         GGTCTGTGCATGCATGCAG
genomic: CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCACgtaaggcttc ... ttatctgtagGGTCTGTGCATGCATGCAG
EST: gi|23732520|gb|BU764420.1|BU764420
EST:     CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCAC                         GGTCTGTGCATGCATGCAG
genomic: CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCACgtaaggcttc ... ttatctgtagGGTCTGTGCATGCATGCAG
EST: gi|254328214|gb|GR835179.1|GR835179
EST:     CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCAC                         GGTCTGTGCATGCATGCAG
genomic: CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCACgtaaggcttc ... ttatctgtagGGTCTGTGCATGCATGCAG
EST: gi|192308244|gb|FK002756.1|FK002756
EST:     CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCAC                         GGTCTGTGCATGCATGCAG
genomic: CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCACgtaaggcttc ... ttatctgtagGGTCTGTGCATGCATGCAG
EST: gi|13312651|gb|BG406302.1|BG406302
EST:     GCTGACTTTGTGTACTGCAC                         GGTCTGTGCATGCATGCAG
genomic: GCTGACTTTGTGTACTGCACgtaaggcttc ... ttatctgtagGGTCTGTGCATGCATGCAG
EST: gi|31461793|gb|CD403821.1|CD403821
EST:     CTTTGTGTACTGCAC                         GGTCTGTGCATGCATGCAG
genomic: CTTTGTGTACTGCACgtaaggcttc ... ttatctgtagGGTCTGTGCATGCATGCAG
EST: gi|192299321|gb|FG992499.1|FG992499
EST:     CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCAC                         GGTCTGTGCATGCATGCAG
genomic: CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCACgtaaggcttc ... ttatctgtagGGTCTGTGCATGCATGCAG
EST: gi|16105268|gb|BI893008.1|BI893008
EST:     CAAGAGGCTTCTCAGTTGCTGTCTTTTTTGGCTGACTTTGTGTACTGCAC                         GGTCTGTGCATGTATGCAG
genomic: CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCACgtaaggcttc ... ttatctgtagGGTCTGTGCATGCATGCAG
EST: gi|209703865|gb|BW656915.1|BW656915
EST:     CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCAC                         GGTCTGTGCATGCATGCAG
genomic: CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCACgtaaggcttc ... ttatctgtagGGTCTGTGCATGCATGCAG
EST: gi|192302560|gb|FG996296.1|FG996296
EST:     CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCAC                         GGTCTGTGCATGCATGCAG
genomic: CAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCACgtaaggcttc ... ttatctgtagGGTCTGTGCATGCATGCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGCATGTATATTCTCTATTGTTGCCATGATTGTGGGAAGCGATGAAATTCAAGAGGCTTCTCAGTTGCTGTCTTGTTTGGCTGACTTTGTGTACTGCACgtaaggcttcctcttctgtccgagtcaaaattaattgttcacactttctagaagaaggagtttgtactaattttattattccttttatctgtag

- - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG