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'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acagtcatatttataaagcaaaaatggatttaatattcctcagttggtgtaaatttttgtaatcaaaatggtgaataaaaatatcatgcacattttgcagATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAGCCCATATCCTCCTTGTTGGTAGAAG

Basic information

species Glycine max
transcript GLYMA20G36200.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G36200.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv04s0023g00140.t01 (Vitis vinifera), 3'ss of exon 6
acagtcatatttataaagcaaaaatggatttaatattcctcagttggtgtaaatttttgtaatcaaaatggtgaataaaaat--atcatgcacattttgcagATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAGCCCATATCCTCCTTGTTGGTAGAAG
    |    | ||| |     | |    |||| | |   | ||   |  ||||  | |  | |||   |  |  ||||   |  |        |  || ||||||||| ||||||||||||| |||| ||||| |||||||||||||||||||| ||| |  ||||  ||||||||||
--tatgtcttctattacaatgacaccattttattttgtattaggaaggctaaaagtctaaattcaggttcttacataatgcttaactccctctaaatttcagATCCTGCTGCAAGTGCTGATTTAGCAGTGGTTTTGATGCAAGAAGGATTAGCACATGTTATCCTCATTGGTAGAAG
















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|24136174|gb|BU926684.1|BU926684
EST:     GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTG                         ATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
genomic: GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTGgtacattatc ... cattttgcagATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
EST: gi|298199419|gb|HO042782.1|HO042782
EST:     GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTG                         ATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
genomic: GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTGgtacattatc ... cattttgcagATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
EST: gi|298190319|gb|HO032440.1|HO032440
EST:     GATGTTTGGGACTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTG                         ATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
genomic: GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTGgtacattatc ... cattttgcagATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
EST: gi|26058966|gb|CA801880.1|CA801880
EST:     GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTG                         ATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
genomic: GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTGgtacattatc ... cattttgcagATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
EST: gi|151406328|gb|EV276143.1|EV276143
EST:     GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTG                         ATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
genomic: GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTGgtacattatc ... cattttgcagATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
EST: gi|254319823|gb|GR830847.1|GR830847
EST:     GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTG                         ATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
genomic: GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTGgtacattatc ... cattttgcagATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
EST: gi|18040102|gb|BM308396.1|BM308396
EST:     GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTG                         ATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
genomic: GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTGgtacattatc ... cattttgcagATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
EST: gi|7458586|gb|AW666036.1|AW666036
EST:     GATGTNTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTG                         ATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTTATGCAAGAAGGATTAG
genomic: GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTGgtacattatc ... cattttgcagATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
EST: gi|298196568|gb|HO041311.1|HO041311
EST:     GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTG                         ATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG
genomic: GATGTTTGGGATTCTTTGGCTTTGGAGGTACTACAGCAGGCCTCTGgtacattatc ... cattttgcagATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtgtaaatttttgtaatcaaaatggtgaataaaaatatcatgcacattttgcagATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAGCCCATATCCTCCTTGTTGGTAGAAG
     aaatttttgtaatcaa  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acagtcatatttataaagcaaaaatggatttaatattcctcagttggtgtaaatttttgtaatcaaaatggtgaataaaaatatcatgcacattttgcagATCCTGGTGCAAGTGCTGATCTAGCCGTGGTGTTGATGCAAGAAGGATTAGCCCATATCCTCCTTGTTGGTAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - -aagcaaaa
- - - - - - - - - - - - - - - - - - - - - gttggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgca