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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggtactactattattcttttgttttccaacatactgatttatgttaaagcatgtacaaggctttttttcctttttttccctcatgcaaaggtttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCATGGAGATAGTAGCAAACAAGGAAGTTATTTCAGTTAACCAA

Basic information

species Glycine max
transcript GLYMA18G44820.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G44820.1 (Glycine max), 3'ss of exon 11
lower sequence: AT5G08380.1 (Arabidopsis thaliana), 3'ss of exon 11
ggtactactattattcttttgttttccaacatactgat-ttatgttaaagcatgtacaaggctttttttcctttttttccctcatgcaaaggt-ttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCATGGAGATAGTAGCAAACAAGGAAGTTATTTCAGTTAACCAA-
           ||  || |   || || | |||  ||   | | || ||      ||||    | ||     |     |  | ||| | |  | | | |||||||||||||||| ||||| |||||  | || || ||||| ||||| || |||||||| || || ||||||||||| ||| |  |||| ||| 
----------gtaagctatatattcccgaaatagagaaactctcttcaa------acaacatatattaagtctgaaaccaatgatgtatatatatcactgcagGCTCCTCTTCTACTTGGTTGTGACATAAGAAACATGACCAAAGAAACAATGGAGATTGTCGCCAACAAGGAAGTCATTGCTATTAATCAAG
















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|208026787|gb|GD822987.1|GD822987
EST:     AGTTTATGGGCCCTTTCCAA                         GGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
genomic: AGTTTATGGGCCCTTTCCAAggtactacta ... gtttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
EST: gi|51335838|gb|CO979704.1|CO979704
EST:     ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAA                         GGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
genomic: ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAAggtactacta ... gtttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
EST: gi|207751779|gb|GD723996.1|GD723996
EST:     ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAA                         GGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
genomic: ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAAggtactacta ... gtttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
EST: gi|192330118|gb|FK019773.1|FK019773
EST:     ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAA                         GGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
genomic: ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAAggtactacta ... gtttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
EST: gi|208198385|gb|GD995476.1|GD995476
EST:     ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAA                         GGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
genomic: ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAAggtactacta ... gtttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
EST: gi|31309897|gb|CD395100.1|CD395100
EST:     ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAA                         GGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
genomic: ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAAggtactacta ... gtttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
EST: gi|13312579|gb|BG406230.1|BG406230
EST:     ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAA                         GGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
genomic: ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAAggtactacta ... gtttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
EST: gi|193558294|gb|FK514903.1|FK514903
EST:     ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAA                         GGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
genomic: ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAAggtactacta ... gtttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
EST: gi|208124534|gb|GD921516.1|GD921516
EST:     ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGG-CCCTTTCCAA                         GGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATA
genomic: ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAAggtactacta ... gtttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATA
EST: gi|24206259|gb|BU965512.1|BU965512
EST:     ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAA                         GGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
genomic: ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAAggtactacta ... gtttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
EST: gi|208186280|gb|GD984585.1|GD984585
EST:     ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAA                         GGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT
genomic: ATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAAggtactacta ... gtttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagcatgtacaaggctttttttcctttttttccctcatgcaaaggtttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCATGGAGATAGTAGCAAACAAGGAAGTTATTTCAGTTAACCAA
                tttttttccttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtactactattattcttttgttttccaacatactgatttatgttaaagcatgtacaaggctttttttcctttttttccctcatgcaaaggtttattgcaGGCTCCTCTTCTTCTTGGCTGTGATGTTAGGAATATGACTAAAGAGACCATGGAGATAGTAGCAAACAAGGAAGTTATTTCAGTTAACCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA