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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggtataataatggtcttggatcttcccatgtaattttacattttggcattttccggctgatgttttcattttggtttctttaGGTTAGAGATGAGACTTACACAGCCTTTGAGAACATATATCCAGTGCTTACTGAGTTCAGGAAAAACCAACAAT

Basic information

species Glycine max
transcript GLYMA18G44460.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G44460.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os12g39070.1 (Oryza sativa), 3'ss of exon 7
ggtataataatggtcttggatcttcccatgtaattttacattttggcattttccggctgatgttttcattttggtttctttaGGTTAGAGATGAGACTTACACAGCCTTTGAGAACATATATCCAGTGCTTACTGAGTTCAGGAAAAACCAACAAT-
        |   | |||   || |    | ||   ||   | |       ||   |    | |     |  | || | | ||||| || |||||||| || || ||||||||||||||||| || ||||| || |||||||| |||  ||| |||| 
-----gtaagcagcctt---tccttttgtatacccttgattgtctattcctttttgtatgtctgaatgtacttgtctttatagGTGAGGGATGAGACGTATACCGCCTTTGAGAACATATACCCTGTGCTAACAGAGTTCAGAAAAGTCCAGCAATG

upper sequence: GLYMA18G44460.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os03g45410.1 (Oryza sativa), 3'ss of exon 8
ggtataataatggtcttggatcttcccatgtaattttacattttggcattttccggctgatgttttcattt-tggtttctttaGGTTAGAGATGAGACTTACACAGCCTTTGAGAACATATATCCAGTGCTTACTGAGTTCAGGAAAAACCAACAAT-
       ||   | |||   || |    | || | ||   |         ||   |   |||| |  || |   || | | ||||| || |||||||| || || ||||||||||||||||| || ||||| || |||||||| |||  ||| || | 
-----gttagcagcctt---tccttttgtatattcttgattgcctattcctttttgt--atgtctgaatatactgtctttatagGTGAGGGATGAGACGTATACCGCCTTTGAGAACATATACCCTGTGCTAACGGAGTTCAGAAAAGTCCAGCAGTG

upper sequence: GLYMA18G44460.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv06s0004g00180.t01 (Vitis vinifera), 3'ss of exon 8
--------------------ggtataataatggtcttggatcttcccatgtaattttacattt---tggcattttccggctgatgttttcattttggtttc----tttaGGTTAGAGATGAGACTTACACAGCCTTTGAGAACATATATCCAGTGCTTACTGAGTTCAGGAAAAACCAACAAT-
                    | |     |||  |   ||   | || ||   |||||| ||||     | ||  ||       ||   | |||||   | |    || |||| ||||||||||| || ||||| |||||||||||||| || || |||||||||||| |||| |||||||||| 
gtgatgtcatatgtttgtttgttgcttgaattcttggggtcttccctattggattttatatttgtcctggatggtcacttaattggaattattttatgtcccaacttcagGTGAGAGATGAGACATATACAGCGTTTGAGAACATATACCCTGTCCTTACTGAGTTCCGGAAGAACCAACAATG

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|12688015|gb|BG154351.1|BG154351
EST:     ATAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTGACGGGAGCCAA                         GGTTAGAGATGAGACTTACACAGCCTTTGAGAACATATATCCAGTGCTTAC
genomic: ATAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTGACGGGAGCCAAggtataataa ... ggtttctttaGGTTAGAGATGAGACTTACACAGCCTTTGAGAACATATATCCAGTGCTTAC
EST: gi|31467402|gb|CD409430.1|CD409430
EST:     ATAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTGACGGGAGCCAA                         GGTTAGAGATGAGACTTACACAGCCTTTGAGAACATATATCCAGTGCTTAC
genomic: ATAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTGACGGGAGCCAAggtataataa ... ggtttctttaGGTTAGAGATGAGACTTACACAGCCTTTGAGAACATATATCCAGTGCTTAC
EST: gi|9440109|gb|BE440620.1|BE440620
EST:     ATAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTGACGGGAGCCAA                         GGTTAGAGATGAGACTTACACAGCCTTTGAGAACATATATCCAGTGCTTAC
genomic: ATAGTCTTGCTTATATTTGTCTCTGGAAAAATTGTTCTGACGGGAGCCAAggtataataa ... ggtttctttaGGTTAGAGATGAGACTTACACAGCCTTTGAGAACATATATCCAGTGCTTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtaattttacattttggcattttccggctgatgttttcattttggtttctttaGGTTAGAGATGAGACTTACACAGCCTTTGAGAACATATATCCAGTGCTTACTGAGTTCAGGAAAAACCAACAAT
                           ggctgat  putative branch site (score: 4)
                                               tttcttt  putative PPT
     attttacatttt  TA-rich tract