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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattagctttacttcttttgttgccaaatattttctgctttcttgaacttggaatatattcatgtctttctagGTTGTTAAGCAAAGGATGCAGATTGGGCAATTTAAATCAGCCCCAGATGCTGTCCGTCTTATTGTTGCTAATGAGGGTTTTAAAGGTCTTTTTGCG

Basic information

species Glycine max
transcript GLYMA10G36580.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G36580.3 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G042027_T05 (Zea mays), 3'ss of exon 6
gtaattagctttacttctt-ttgttgccaaatattttctgctttcttgaacttggaatatattcatgtctttctagGTTGTTAAGCAAAGGATGCAGATTGGGCAATTTAAATCAGCCCCAGATGCTGTCCGTCTTATTGTTGCTAATGAGGGTTTTAAAGGTCTTTTTGCG
||   ||  ||||  |||| ||  | |   || |  |  | | |  |  |     | || ||     |   || |||| || || ||||||||||| | ||| ||||| || || || || |||||||| ||||| ||||||||||| || || |||||||| || |  || 
gtctgtaattttatatcttattactactccatgtagt--gttgtactccatccaaattagatgtcactgcatccagGTGGTCAAACAAAGGATGCAAACTGGTCAATTCAAGTCTGCACCTGATGCTGTTCGTCTCATTGTTGCTAAAGAAGGATTTAAAGGACTGTACGCT

upper sequence: GLYMA10G36580.3 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0157g00180.t01 (Vitis vinifera), 3'ss of exon 6
gtaattagctttacttcttttgttgccaaatattttctgctttcttgaacttggaatatattcatgtctttctagGTTGTTAAGCAAAGGATGCAGATTGGGCAATTTAAATCAGCCCCAGATGCTGTCCGTCTTATTGTTGCTAATGAGGGTTTTAAAGGTCTTTTTGCG
||  | | |||| ||||  |  |   |   |  ||  |    |||||| | |   ||   ||||   | | | |||||||||||||||| ||||||| ||||||||||   || ||  | |||||||| |  ||||||||||| || ||||| ||||||||||| | ||||
gttttgaacttttcttcaatcctattct--ttcttcttataatcttgagcctcttatcatttcaacacctcccagGTTGTTAAGCAAAGAATGCAGACTGGGCAATTTGCTTCTGCAACTGATGCTGTTCAACTTATTGTTGCCAAGGAGGGGTTTAAAGGTCTCTATGCG
















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|12689523|gb|BG155859.1|BG155859
EST:     CAGGTGCTATTGGAGGCATTGCTTCTTCTGTTGTTCGTGTTCCAACTGAG                         GTTGTTAAGCAAAGGATGCAGATTGGGCAATTTAAATCAGCCCCAGATGCT
genomic: CAGGTGCTATTGGAGGCATTGCTTCTTCTGTTGTTCGTGTTCCAACTGAGgtaattagct ... gtctttctagGTTGTTAAGCAAAGGATGCAGATTGGGCAATTTAAATCAGCCCCAGATGCT
EST: gi|192330015|gb|FK020831.1|FK020831
EST:     CAGGTGCTATTGGAGGCATTGCTTCTTCTGTTGTTCGGGTTCCAACTGAG                         GTTGTTAAGCAAAGGATGCAGATTGGGCAATTTAAATCAGCCCCAGATGCT
genomic: CAGGTGCTATTGGAGGCATTGCTTCTTCTGTTGTTCGTGTTCCAACTGAGgtaattagct ... gtctttctagGTTGTTAAGCAAAGGATGCAGATTGGGCAATTTAAATCAGCCCCAGATGCT
EST: gi|192328563|gb|FK020781.1|FK020781
EST:     CAGGTGCTATTGGAGGCATTGCTTCTTCTGTTGTTCGGGTTCCAACTGAG                         -TTGTTAAGCAAAGGATGCAGATTGGGCAATTTAA-TCAGCCC-AGATGCT
genomic: CAGGTGCTATTGGAGGCATTGCTTCTTCTGTTGTTCGTGTTCCAACTGAGgtaattagct ... gtctttctagGTTGTTAAGCAAAGGATGCAGATTGGGCAATTTAAATCAGCCCCAGATGCT
EST: gi|192328905|gb|FK021374.1|FK021374
EST:     CACGTGCTATTGGAGGCATTGCTTCTTCTGTTGTTCGTGTTCCAACTGAG                         -TTGTTAAGCAAAGGATGCAGATTGGGCAATTTAAATCAGCCC-AGATGCT
genomic: CAGGTGCTATTGGAGGCATTGCTTCTTCTGTTGTTCGTGTTCCAACTGAGgtaattagct ... gtctttctagGTTGTTAAGCAAAGGATGCAGATTGGGCAATTTAAATCAGCCCCAGATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgccaaatattttctgctttcttgaacttggaatatattcatgtctttctagGTTGTTAAGCAAAGGATGCAGATTGGGCAATTTAAATCAGCCCCAGATGCTGTCCGTCTTATTGTTGCTAATGAGGGTTTTAAAGGTCTTTTTGCG
                                            tgtctttct  CT-rich tract
       aaatattttct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattagctttacttcttttgttgccaaatattttctgctttcttgaacttggaatatattcatgtctttctagGTTGTTAAGCAAAGGATGCAGATTGGGCAATTTAAATCAGCCCCAGATGCTGTCCGTCTTATTGTTGCTAATGAGGGTTTTAAAGGTCTTTTTGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG