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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCTGGATGAGAACAAGTCCTTAATTCTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaattacacttattcttttgttctgtttgaattgaatttagtgtttctcatttctttattacttgtcaagcataatgtctccatctgggtgcctgg...

Basic information

species Glycine max
transcript GLYMA19G43580.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G43580.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv14s0081g00200.t01 (Vitis vinifera), 5'ss of exon 2
TATCTGGATGAGAACAAGTCCTTAATTCTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaattaca-cttattcttttgttctgtttgaattgaatttagtgtttctcatttct--ttattacttgtcaagcataat--gtctccatctgggtgcctgg
||||| ||||| |||||||| || ||||||||||||||||| ||||||||||| || ||  |||  || ||||| ||||||| ||  |  |||  | ||   |||  | |   ||  | ||    |  ||||       || |  |||  ||   |||||   |||   |||   ||     
TATCTTGATGAAAACAAGTCATTGATTCTGAAGATTGTTGAGAGCCAGAATTCAGGAAAATTGACTGAATGTGCAGAgtaagtatgccttcttggttttcatttccttgtatgttatagtttacttacctcaaaaaagattgtagctttgcataaataatcaatctttttctctttg-----
















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|208180264|gb|GD975807.1|GD975807
EST:     CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGA                         GAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTGA
genomic: CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaatta ... tttttttcagGAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTGA
EST: gi|298199270|gb|HO042633.1|HO042633
EST:     CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGA                         GAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTGA
genomic: CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaatta ... tttttttcagGAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTGA
EST: gi|207719536|gb|GD703491.1|GD703491
EST:     CTGAAGATCGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGA                         GAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAG
genomic: CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaatta ... tttttttcagGAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAG
EST: gi|208290307|gb|GE082735.1|GE082735
EST:     CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGA                         GAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTAG
genomic: CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaatta ... tttttttcagGAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCT-G
EST: gi|207804600|gb|GD777759.1|GD777759
EST:     CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGA                         GAACCAAGCAAGGCTT
genomic: CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaatta ... tttttttcagGAACCAAGCAAGGCTT
EST: gi|208116462|gb|GD914521.1|GD914521
EST:     CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGA                         GAACCAAGCAAGGCTTCAGAGAAATCT
genomic: CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaatta ... tttttttcagGAACCAAGCAAGGCTTCAGAGAAATCT
EST: gi|208070376|gb|GD870913.1|GD870913
EST:     CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGA                         GAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTGA
genomic: CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaatta ... tttttttcagGAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTGA
EST: gi|31561308|gb|CD487146.1|CD487146
EST:     CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGA                         GAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTGA
genomic: CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaatta ... tttttttcagGAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTGA
EST: gi|207776266|gb|GD749587.1|GD749587
EST:     CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGA                         GAACCAAGCAAGGCTTCAGAGAAATCT
genomic: CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaatta ... tttttttcagGAACCAAGCAAGGCTTCAGAGAAATCT
EST: gi|20075691|gb|BQ094474.1|BQ094474
EST:     CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGA                         GAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTGA
genomic: CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaatta ... tttttttcagGAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTGA
EST: gi|298164608|gb|HO014253.1|HO014253
EST:     CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGA                         GAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTGA
genomic: CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaatta ... tttttttcagGAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTGA
EST: gi|208301413|gb|GE100268.1|GE100268
EST:     CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGA                         GAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTGA
genomic: CTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaatta ... tttttttcagGAACCAAGCAAGGCTTCAGAGAAATCTCATGTACTTAGCTGCAATAGCTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATCTGGATGAGAACAAGTCCTTAATTCTGAAGATTGTTGAAAGCCAGAATTCTGGCAAGCTGAGCGAGTGTGCCGAgtaagaattacacttattcttttgttctgtttgaattgaatttagtgtttctcatttctttattacttgtcaagcataatgtctccatctgggtgcctgg

- - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctccatc