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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagcgatgttgctgtagcttttttttaatgcatttttgttattgtcagcaatataacctgcctccgttgttgcagACTATATAGAGCTTACCAGAAACTTTTTGCATCCATGCATGATAAAGGAATTGGGCCACACAAAACTCAGTTTAGAAGGGATGAAAACTACGGTAACAAA

Basic information

species Glycine max
transcript GLYMA12G29450.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G29450.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G179732_T03 (Zea mays), 3'ss of exon 3
------gtagcgatgttgctgtagcttttttttaatgcatttttgttattgtcagcaatataacctgcctccgttgttgcagACTATATAGAGCTTACCAGAAACTTTTTGCATCCATGCATGATAAAGGAATTGGGCCACACAAAACTCAGTTTAGAAGGGATGAAAACTACGGTAACAAA
       ||  || | | ||  |  ||   ||| |   ||  |  || || |  | |  | |||||     | |   |||||| | || | ||||||||| ||| | | |||||||||||||||||||| || ||| |||||||||||||| || ||||| |||||  | || |        
gtatgaatattgacgctactacacattcacttttaca-atagtgattcttctttgtatgacaacct-----catatgtgcagATTGTACAAAGCTTACCAAAAATTGTATGCATCCATGCATGATAAAGCAACTGGTCCACACAAAACTCAATTCAGAAGAGATGAGGATTATG--------

upper sequence: GLYMA12G29450.1 (Glycine max), 3'ss of exon 11
lower sequence: AT2G28390.1 (Arabidopsis thaliana), 3'ss of exon 11
gtagcgatgttgctgtagcttttttttaatgcattt--ttgttattgtcagcaatataac-ctgcctccgt-----tgttgcagACTATATAGAGCTTACCAGAAACTTTTTGCATCCATGCATGATAAAGGAATTGGGCCACACAAAACTCAGTTTAGAAGGGATGAAAACTACGGTAACAAA
   |  |  ||  || | ||   |   ||  ||  |  ||  ||||   |     | |   |||     ||     |||||||| |||||| |||| ||||||||||||| ||| || |||||||  |||||| | || || ||||| ||||| | |||||| ||||||||||||         
---gtaaaattcatgaaactccatgggaaaccaagtgattagtatttggaatggaaaagtactgatgtagtagttgtgttgcagTCTATATCGAGCATACCAGAAACTTTATGCTTCAATGCATGTAAAAGGATTGGGACCCCACAAGACTCAATATAGAAGAGATGAAAACTACA--------

upper sequence: GLYMA12G29450.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 11
--------------------------------------------gtagcgatgttgctgtagcttttttttaatgcatttttgttattgtcagcaatataacctgcctccgttgttgcagACTATATAGAGCTTACCAGAAACTTTTTGCATCCATGCATGATAAAGGAATTGGGCCAC---ACAAAACTCAGTTTAGAAGGGATGAAAACTACGGTAACAAA
                                             | |     || |||| |  | | | |  |    ||| |||  |||||| || |||||  |  |||  | ||||||| ||||||||||||||||||| |||| ||| ||||||||||||| |||| | || || |   | ||||| ||||||||||||||||||||||| |        
gtaaaagtgttaaatctttgtgtcaacttcactggacatgagttctgggttcttttctgttgtctatgtcttttctgcttt-gttgctgtcaggaaaataacaagt-tcctcttttgcagATTATATAGAGCTTACCAGAAGCTTTATGCTTCCATGCATGATAGAGGAGTGGGCCCCCCCCATAAAACACAGTTTAGAAGGGATGAAAACTATG--------

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|213589623|gb|DB982656.1|DB982656
EST:     ACAAAATCAGAGTTCTCATAACCAATTAACACTCCTAAGCAGCAGAAAAG                         ACTATATAGAGCTTACCAGAAACTTTTTGCATCCATGCATGATAAAGGAAT
genomic: ATATCTTCAGAGTTCTCATCACCAATTAACACTCCTAAGCAGCAGAAAAGgtagcgatgt ... gttgttgcagACTATATAGAGCTTACCAGAAACTTTTTGCATCCATGCATGATAAAGGAAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttaatgcatttttgttattgtcagcaatataacctgcctccgttgttgcagACTATATAGAGCTTACCAGAAACTTTTTGCATCCATGCATGATAAAGGAATTGGGCCACACAAAACTCAGTTTAGAAGGGATGAAAACTACGGTAACAAA
                              atataac  putative branch site (score: 3)
                                        cctccgtt  putative PPT
           atttttgttattgt  TA-rich tract