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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttaagtcactctatttgttgccatgttgactttttatttaaccctttgcacttcctcatttaattgttagatctgaaatttgtattttatttttttggattcaatgtagAACCACATGAGTGAGATGTTTGCATACCATGCAACCATGATGTCTAACACTCTTGGAACCTCAACTGTTGTCTTCACTAGAACGGGTTTCATGGCTGTCC

Basic information

species Glycine max
transcript GLYMA09G23150.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G23150.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os01g47080.1 (Oryza sativa), 3'ss of exon 9
gtttaagtcactctatttgttgccatgttgactttttatt-taaccctttgcactt-cctcatttaattgttagatctgaaatttgtattttatttttttggattcaatgtagAACCACATGAGTGAGATGTTTGCATACCATGCAACCATGATGTCTAACACTCTTGGAACCTCAACTGTTGTCTTCACTAGAACGGGTTTCATGGCTGTCC
                  ||    |   |||  |   ||  || |||| |||  || ||||||| ||||      ||| |   ||  ||||  || |            |||||| ||||||||||| ||||||||||||||| |||| |||||||| |||||||||||||| |||| ||| || ||||| || || || || |||||| |||
------------------gtctgaactctgaactgccatgatacccctgtgccttttcctcattcaattcccttttctaa---ttacatttctttct------------gtagAATCACATGAGTGAAATGTTTGCATACCATTCAACAATGATGTCCAACACTCTTGGAACATCAATTGTGGTTTTCACCAGGACAGGATTTATGGCTATCC

upper sequence: GLYMA09G23150.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G152686_T01 (Zea mays), 3'ss of exon 9
gtttaagtcactctatttgttgccatgtt---gactttttatttaaccctttgcacttcctcatttaattgttagatctgaaatttgtattttatttttttggat-tcaatgtagAACCACATGAGTGAGATGTTTGCATACCATGCAACCATGATGTCTAACACTCTTGGAACCTCAACTGTTGTCTTCACTAGAACGGGTTTCATGGCTGTCC
||||    || ||   |  |    ||       |  |   ||| | | |||     ||  ||  | |  || | |||||    |||  |||||          || |   |||||||||||||||| || ||||| |||||||||||||| |||||||| || || ||| |||| ||||  || || |||||||| ||||| || |||||| | |
gtttgccacattcacctcttaagtattcgagaaaaataacattcacctcttcagtttttttccatca--tgct-gatcttccttttccattttccaaccacatatctttctgtagAACCACATGAGCGAAATGTTCGCATACCATGCAACAATGATGTCAAATACCCTTCGAACATCAATAGTGGTTTTCACTAGGACGGGATTTATGGCTATAC

upper sequence: GLYMA09G23150.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G52920.1 (Arabidopsis thaliana), 3'ss of exon 9
gtttaagtcactctatttgttgccatgttgactttttatttaaccctttgcacttcctcatttaattgtta---gatctgaaatttgtattttatttttttggattcaatgtagAACCACATGAGTGAGATGTTTGCATACCATGCAACCATGATGTCTAACACTCTTGGAACCTCAACTGTTGTCTTCACTAGAACGGGTTTCATGGCTGTCC
             ||      |||   ||  ||| |   || |  || |||||       | || ||||||    |||  ||||    |    |||||||||     | |  ||||||| |||||||||||||||||||||||||||||||||||||| ||||| |||||||| ||||||||||||||||| ||||| |||||||||||  |  
------------gtaagccacgcctgatttccttgtc--ttgaaactctgcaccattgagtctatttgttatctaatccaaaataacaagaacatttttttg---ctactacagAACCATATGAGTGAGATGTTTGCATACCATGCAACCATGATGTCAAACACACTTGGAACTTCAACTGTTGTCTTCACCAGAACCGGTTTCATGGCCATAT

upper sequence: GLYMA09G23150.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 9
---------------------------------gtttaagtcactctatttgttgccatgttgactttttatttaaccctttgcacttcctcatttaattgttagatctga-aatttgtattt--tatttttttggattcaatgtagAACCACATGAGTGAGATGTTTGCATACCATGCAACCATGATGTCTAACACTCTTGGAACCTCAACTGTTGTCTTCACTAGAACGGGTTTCATGGCTGTCC
                                 | |  | |  |  | ||| |||  ||||  | ||||||   ||     |  |  |    | |  ||| | |   || | |||   || ||   ||    ||   |||  |||||||||| ||||| || |||||||| | |||||||||||||||||| || |||||  | || ||||  ||||| ||||||||||| |||||||||||| |||
gtcatttaacatatcctttatatttattttaatgctgcattggccttgttt-ttgtaatgt-aattttttaaaaaaaaaagtttaaatttgtactccattttaactgctaacaatgaatacttaccataagcttcctttctctgtagAACCATATGAGCGAAATGTTTGCTTTCCATGCAACCATGATGTCCAATACTCTCAGTACTTCAATAGTTGTTTTCACTAGAACTGGTTTCATGGCTATCC

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|193420398|gb|FK392214.1|FK392214
EST:     CTACTATACCAGGTGGTCAAATGCCACCTAATATTGGTCCAGTGTTGAAG                         AACCACATGAGTGAGATGTTTGCATACCATGCAACCATGATGTCTAACACT
genomic: CTACTATACCAGGTGGTCAAATGCCACCTAATATTGGTCCAGTGTTGAAGgtttaagtca ... ttcaatgtagAACCACATGAGTGAGATGTTTGCATACCATGCAACCATGATGTCTAACACT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcatttaattgttagatctgaaatttgtattttatttttttggattcaatgtagAACCACATGAGTGAGATGTTTGCATACCATGCAACCATGATGTCTAACACTCTTGGAACCTCAACTGTTGTCTTCACTAGAACGGGTTTCATGGCTGTCC
   atttaat  putative branch site (score: 4)
     ttaattgttagatctg  TA-rich tract