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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTAAGGTTGTGGTAGAGTTGCAGAATGGTGGTGATGGCAAAGTATTCTCTCCCTCTTCTGCAAATACAGCTGTGTCCCAGCCCAACACCTCTCAGAAAAGgtactccagtttttctttcttgtatccatgttttgttacttttcgacagaggatattcattcccagagtcacgttgtttcacttttttttttttaatttt...

Basic information

species Glycine max
transcript GLYMA15G02350.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G02350.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0002g03410.t01 (Vitis vinifera), 5'ss of exon 3
---------CTAAGGTTGTGGTAGAGTTGCAGAATGGTGGTGATGGCAAAGTATTCTCTCCCTCTTCTGCAAATACAGCTGTGTCCCAGCCCAACACCTCTCAGAAAAGgtactccagtttttctttcttgtatccatgttttgttacttttcgacagaggatattcattcccagagtcacgttgtttcacttttttttttttaatttt-
           |     || ||||| |||||||||      ||    || | ||| || ||  ||||||||||||||||||||      ||||||| |||||||||||||||| |||| ||||||   |  |||  || ||||     |  | |||||||||||||||  | || |||||| |||||||| ||   | |  |      | 
AGCCCTGTTGCACTAAAGTAGTAGACTTGCAGAATAC---AGAAAAGAAGGCATTTTCACCAGCTTCTGCAAATACAGCTGTG------CCCAACAGCTCTCAGAAAAGgtaccccagcttttctcattattatt-attttttaaatttccttgacagaggatattcacccacacagtcacattgtttcatttacatgtagtggtccatg
















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|193485336|gb|FK452448.1|FK452448
EST:     CCCTCTTCTGCAAATACAGCTGTGTCCCAGCCCAACACCTCTCAGAAAAG                         AACTGCTCCTGCTCCAGTGGTGGGGT
genomic: CCCTCTTCTGCAAATACAGCTGTGTCCCAGCCCAACACCTCTCAGAAAAGgtactccagt ... taacaaacagAACTGCTCCTGCTCCAGTGGTGGGGT
EST: gi|16349075|gb|BI974670.1|BI974670
EST:     CCCTCTTCTGCAAATACAGCTGTGTCCCAGCCCAACACCTCTCAGAAAAG                         AACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCCTTCAGGAA
genomic: CCCTCTTCTGCAAATACAGCTGTGTCCCAGCCCAACACCTCTCAGAAAAGgtactccagt ... taacaaacagAACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCCTTCAGGAA
EST: gi|208125198|gb|GD925254.1|GD925254
EST:     CCAACACCTCTCAGAAAAG                         AACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCCTTCAGGAA
genomic: CCAACACCTCTCAGAAAAGgtactccagt ... taacaaacagAACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCCTTCAGGAA
EST: gi|22541553|gb|BU091396.1|BU091396
EST:     CCCTCTTCTGCAAATACAGCTGTGTCCCAGCCCAACACCTCTCAGAAAAG                         AACTGCTCCTGCTCCAGTGGTGGGGGTG-CCCCCAATTCGTTCCTTCAGGA
genomic: CCCTCTTCTGCAAATACAGCTGTGTCCCAGCCCAACACCTCTCAGAAAAGgtactccagt ... taacaaacagAACTGCTCCTGCTCCAGTGGTGGGG-TGGCCCCCAATTCGTTCCTTCAGGA
EST: gi|207775409|gb|GD746840.1|GD746840
EST:     CCCTCTTCTGCAAATACAGCTGTGTCCCAGCCCAACACCTCTCAGAAAAG                         AACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCCTTCAGGAA
genomic: CCCTCTTCTGCAAATACAGCTGTGTCCCAGCCCAACACCTCTCAGAAAAGgtactccagt ... taacaaacagAACTGCTCCTGCTCCAGTGGTGGGGTGGCCCCCAATTCGTTCCTTCAGGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTAAGGTTGTGGTAGAGTTGCAGAATGGTGGTGATGGCAAAGTATTCTCTCCCTCTTCTGCAAATACAGCTGTGTCCCAGCCCAACACCTCTCAGAAAAGgtactccagtttttctttcttgtatccatgttttgttacttttcgacagaggatattcattcccagagtcacgttgtttcacttttttttttttaatttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG