Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATTTGAGGCTGTGAAGGTCCGTGTCCAAACTCAGCCTGGTTTTGCAAGGGGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGGgtatgcttacaaatgctgttaactcttacattgtttttggtagaggatgtactataatctttctttgttgatctatgctgagaattaagattaggatgccatcttatgcagtgtcttatgatttcag

Basic information

species Glycine max
transcript GLYMA19G27380.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G27380.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os04g37600.1 (Oryza sativa), 5'ss of exon 2
CATTTGAGGCTGTGAAGGTCCGTGTCCAAACTCAGCCTGGTTTTGCAAGGGGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGGgtatgcttacaaatgctgttaactcttacattgtttt-tggtagaggatgtactataatctttctttgttgatctatgctgagaattaagattaggatgccatcttatgcagtgtcttatgatttcag
|  | |||||||||||||| ||||| || || || ||||| ||||| || ||||| |||||||| || ||||| |||||||   | |||||       ||||| | | | |    ||  ||| ||  ||||||||   |    | |  | ||  || |   |||    |  || | | ||| | |                                           
CCATGGAGGCTGTGAAGGTTCGTGTGCAGACACAACCTGGCTTTGCGAGAGGTTTATCTGATGGTCTTCCAAAGTTTGTCAAGGCAGAAGGCTATGCTGGgtaagttgatagggtcttgtaaatc--acattgttcagtaagcgggtctctaacatcagtcttccaactcaatgtttactgtgcag------------------------------------------

upper sequence: GLYMA19G27380.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G015401_T01 (Zea mays), 5'ss of exon 2
CATTTGAGGCTGTGAAGGTCCGTGTCCAAACTCAGCCTGGTTTTGCAAGGGGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGGgtatgcttacaaatgctgttaactcttacattgtttttggtagaggatgtactataatctttctttgttgatctatgctgagaattaagattaggatgccatcttatgcagtgtcttatgatttcag
| ||||| ||||||||||| ||||| || || || ||||| |||||  | || |||  |||||||||||| ||||||||| ||||||| ||     | ||||| ||  |      ||   ||     | || |||   |     |  | |       | |     | | | ||| |||||   | ||   ||||                                 
CTTTTGAAGCTGTGAAGGTACGTGTGCAGACACAACCTGGATTTGCTCGTGGATTGAGTGATGGGCTCCCCAAATTTGTCCGATCTGAGGGTGTTCTTGGgtaagcaaattggctctaaaaaa----atatcgttcaagacttggcttctggccatgtgtcctaatatagctct-tgctgcttaatatttttag---------------------------------

upper sequence: GLYMA19G27380.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G152827_T01 (Zea mays), 5'ss of exon 2
CATTTGAGGCTGTGAAGGTCCGTGTCCAAACTCAGCCTGGTTTTGCAAGGGGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGGgtatgcttacaaatgctgttaactcttacattgtttttggta---gaggatgtactataatctttct-ttgttgatctatgctgagaattaagattaggatgccatcttatgcagtgtcttatgatttcag
| ||||| ||||||||||| ||||| || || || ||||| |||||  | || |||  |||||||||||| ||||||||| ||||||| ||     | ||||| ||         ||   || | |          |||      |   ||||    |||| |  || ||| || |  ||  |   |                                            
CTTTTGAAGCTGTGAAGGTACGTGTGCAGACACAACCTGGATTTGCTCGTGGATTGAGTGATGGGCTCCCCAAATTTGTCCGATCTGAGGGTGTTCTTGGgtaagcaatttggctctaaaaaatatcgttcaagacttgacttctggccatgtgtcctaatatagctcttgctgcttaatatttttag-------------------------------------------

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|207681920|gb|GD662037.1|GD662037
EST:     GGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGG                         GCTGTACAAGGGGTTAGTGCCTCTCTGGGGACGACAAATTCCAT
genomic: GGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGGgtatgcttac ... atgatttcagGCTGTACAAGGGGTTAGTGCCTCTCTGGGGACGACAAATTCCAT
EST: gi|10845648|gb|BF068722.1|BF068722
EST:     GGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAAG                         GCTGTACAAGGGGTTAGTGCCTCTCTGGGGACGACAAATTCCAT
genomic: GGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGGgtatgcttac ... atgatttcagGCTGTACAAGGGGTTAGTGCCTCTCTGGGGACGACAAATTCCAT
EST: gi|207703091|gb|GD684883.1|GD684883
EST:     GGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGG                         GCTGTACAAGGGGTTAGTGCCTCTCTGGGGACGACAAATTCCAT
genomic: GGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGGgtatgcttac ... atgatttcagGCTGTACAAGGGGTTAGTGCCTCTCTGGGGACGACAAATTCCAT
EST: gi|298168584|gb|HO009514.1|HO009514
EST:     GGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGGAGGAACCTTAGG                         GCTGTACAAGGGGTTAGTGCCTCTCTGGGGACGACAAATTCCAT
genomic: GGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGGgtatgcttac ... atgatttcagGCTGTACAAGGGGTTAGTGCCTCTCTGGGGACGACAAATTCCAT
EST: gi|192295707|gb|FG990561.1|FG990561
EST:     GGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGG                         GCTGTACAAGGGGTTAGTGCCTCTCTGGGGACGACAAATTCCAT
genomic: GGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGGgtatgcttac ... atgatttcagGCTGTACAAGGGGTTAGTGCCTCTCTGGGGACGACAAATTCCAT
EST: gi|58024028|gb|CX710769.1|CX710769
EST:     TGAAGGAACCTTAGG                         GCTGTACAAGGGGTTAGTGCCTCTCTGGGGACGACAAATTCCAT
genomic: TGAAGGAACCTTAGGgtatgcttac ... atgatttcagGCTGTACAAGGGGTTAGTGCCTCTCTGGGGACGACAAATTCCAT
EST: gi|208231650|gb|GE034441.1|GE034441
EST:     GGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGG                         GCTGTACAAGGGGTTAGTGCCTCTCTGGGGACGACAAATTCCAT
genomic: GGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGGgtatgcttac ... atgatttcagGCTGTACAAGGGGTTAGTGCCTCTCTGGGGACGACAAATTCCAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATTTGAGGCTGTGAAGGTCCGTGTCCAAACTCAGCCTGGTTTTGCAAGGGGTTTGTCTGATGGGCTCCCAAAATTTGTCAGATCTGAAGGAACCTTAGGgtatgcttacaaatgctgttaactcttacattgtttttggtagaggatgtactataatctttctttgttgatctatgctgagaattaagattaggatgccatcttatgcagtgtcttatgatttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA