Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTGTGGAGAAGAGCTGCCATCAAATACACAAGGAAACCATGGTGCATAAAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAGgtacagcttgtccttttcatcttaaattttcttatgaattatttttgaagagggagggcgagccctggtgcagcggtaaagttgtgccttggtgacttgt...

Basic information

species Glycine max
transcript GLYMA04G39520.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G39520.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv07s0031g01970.t01 (Vitis vinifera), 5'ss of exon 11
------TCTTGTGGAGAAGAGCTGCCATCAAATACACAAGGAAACCATGGTGCATAAAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAGgtacagcttgtccttttcatcttaaattttcttatgaattatttttgaagagggagggcgagccctggtgcagcggtaaagttgtgccttggtgacttgt
      ||||||||| ||||| ||||||||||| ||||||||||||||||| || ||||||||| |||| |||||| ||     || | ||       |  ||| ||||   ||    || |   |||      | |  ||    | |     | |    |      | | | |        | ||  |    ||||  |      
GCTTGATCTTGTGGAAAAGAGTTGCCATCAAATCCACAAGGAAACCATGGTTCACAAAGCTGCCCTGAAAGTTTAAAAATTATGATGTGACC------AACTACTGgtatctctctctctctctctctc-----tccagattgtctttccccaatgccaaaataaatgacattgcttcttt-tcaatctacttcttgcag------
















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|208095528|gb|GD897102.1|GD897102
EST:     AAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAG                         GTGAACCCCAATATAGATGTGATTTTGGACTGAAGGTGCCGTAAAAGGATG
genomic: AAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAGgtacagcttg ... gtaactgcagGTGAACCCCAATATAGATGTGATTTTGGACTGAAGGTGCCGTAAAAGGATG
EST: gi|58014642|gb|CX701384.1|CX701384
EST:     AAGCTGCCTT-AAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAG                         GTGAACCCCAATATAGATGTGATTTTGGACTGAAGGTGCCGTAAAAGGATG
genomic: AAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAGgtacagcttg ... gtaactgcagGTGAACCCCAATATAGATGTGATTTTGGACTGAAGGTGCCGTAAAAGGATG
EST: gi|9563849|gb|BE473358.1|BE473358
EST:     AAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAG                         GTGAACCCCAATATAGATGTGATTTTGGACTGAAGGTGCCGTAAAAGGATG
genomic: AAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAGgtacagcttg ... gtaactgcagGTGAACCCCAATATAGATGTGATTTTGGACTGAAGGTGCCGTAAAAGGATG
EST: gi|21676768|gb|BQ629119.1|BQ629119
EST:     AAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAG                         GTGAACCCCAATATAGATGTGATTTTGGACTGAAGGTGCCGTAAAAGGATG
genomic: AAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAGgtacagcttg ... gtaactgcagGTGAACCCCAATATAGATGTGATTTTGGACTGAAGGTGCCGTAAAAGGATG
EST: gi|31468557|gb|CD410585.1|CD410585
EST:     AAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAG                         GTGAACCCCAATATAGATGTGATTTTGGACTGAAGGTGCCGTAAAAGGATG
genomic: AAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAGgtacagcttg ... gtaactgcagGTGAACCCCAATATAGATGTGATTTTGGACTGAAGGTGCCGTAAAAGGATG
EST: gi|11117944|gb|BF219537.1|BF219537
EST:     AAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAG                         GTGAACCCCAATATAGATGTGATTTTGGACTGAAGGTGCCGTAAAAGGATG
genomic: AAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAGgtacagcttg ... gtaactgcagGTGAACCCCAATATAGATGTGATTTTGGACTGAAGGTGCCGTAAAAGGATG
EST: gi|23734068|gb|BU765251.1|BU765251
EST:     AAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAG                         GTGAACCCCAATATAGATGTGATTTTGGACTGAAGGTGCCGTAAAAGGATG
genomic: AAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAGgtacagcttg ... gtaactgcagGTGAACCCCAATATAGATGTGATTTTGGACTGAAGGTGCCGTAAAAGGATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTTGTGGAGAAGAGCTGCCATCAAATACACAAGGAAACCATGGTGCATAAAGCTGCCTTGAAGGTTTAAGAAGCTCCATATCACTGTTAAAAGTTACAGgtacagcttgtccttttcatcttaaattttcttatgaattatttttgaagagggagggcgagccctggtgcagcggtaaagttgtgccttggtgacttgt

- - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggaggg