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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcatttttcctctattatattatctgtgctttagtacatacattgccctatcgctattattttctttatttctatttgcttatttatggatacagATACTTCACAGTACTTGTCAATATGGACATGAGTCTACATTCAATGGAAGTTGTGAACAGGCTTACAACAGCAGTTGAACTACCGTCTCAATTCATTCAC

Basic information

species Glycine max
transcript GLYMA10G00610.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G00610.3 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os11g13694.1 (Oryza sativa), 3'ss of exon 9
gtatgcatttttcctctattatattatctgt-gctttagtacatacattgccctatcgctattattttct--ttat----ttctatttgcttatttatggat---acagATACTTCACAGTACTTGTCAATATGGACATGAGTCTACATTCAATGGAAGTTGTGAACAGGCTTACAACAGCAGTTGAACTACCGTCTCAATTCATTCAC
||||| |  ||  |  | |  | |  ||| | | |||  ||  || ||| |    |  ||||  || |||  | |     |  || |  | |   | |   |   |||| |||||     | |||||  | ||||| ||||| |||||||||||||||||||| |||||||| || |||||||| || |||||  |   ||||||||| 
gtatgtagattagccttgtcgtttattctattgttttcttattta-attactaatttactatgtttctctactcacaacgtcttactcacatgcctttttctttgacagTTACTTTGATATTCTTGTGCACATGGAAATGAGCCTACATTCAATGGAAGTTGTAAACAGGCTCACTACAGCAGTAGATCTACCACCAGGATTCATTCAT

upper sequence: GLYMA10G00610.3 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os12g09610.1 (Oryza sativa), 3'ss of exon 8
gtatgcatttttcctctattatattatctgtgctttagtacatacattgccctatcgctattattttctttatttctatt-tgcttatttatggatacagATACTTCACAGTACTTGTCAATATGGACATGAGTCTACATTCAATGGAAGTTGTGAACAGGCTTACAACAGCAGTTGAACTACCGTCTCAATTCATTCAC
          |   ||| || | || ||| ||||  |||  |||   | | | | | || || |||  | |||||  ||| ||    |||     | ||| |||||    || |||||  ||||||| ||||| || ||||| ||||||||||| ||||||||||| || || || ||||| ||| |  | ||  | || 
---------gtatgtctgtt-tcttttctttgct--agtcaatatgat-caccaacacttttttttaatatattttaattgtgacccttttctttttcagTTACTTAGATGTTCTTGTGCATATGGAGATGAGCCTGCATTCTATGGAAGTTGTAAACAGGCTTACTACTGCTGTAGAACTCCCGACAGAGTTTGTCCAT

upper sequence: GLYMA10G00610.3 (Glycine max), 3'ss of exon 9
lower sequence: AT5G18420.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatgcatttttcctctattatattatctgtgctttagtacatacattgccctatcgctattattttctttatttctatttgcttatttatggatacagATACTTCACAGTACTTGTCAATATGGACATGAGTCTACATTCAATGGAAGTTGTGAACAGGCTTACAACAGCAGTTGAACTACCGTCTCAATTCATTCAC
           |     || |  ||||  ||  |  |  |  ||| ||   | |    ||| | |||     |    || |    ||   |   | ||| || |    ||  || |  |||||||||||||| || || ||||||||||||||||| ||||| ||||| ||||||||||| ||     | ||||| |  
----------gtaagtcatcaccttattggt--tccaccatttactttcgaccaaaattataacttttaaagtgggaatctaagaatgcttc--ttcagCTATTATGAAGCTCTAGGAAATATGGACATGAGCCTGCACTCAATGGAAGTTGTGAATAGGCTCACAACTGCAGTTGAACTTCCCAAGGACTTCATACGG

upper sequence: GLYMA10G00610.3 (Glycine max), 3'ss of exon 9
lower sequence: Vv07s0130g00310.t01 (Vitis vinifera), 3'ss of exon 9
-------------------gtatgcatttttc-ctctattat----attatctgtgctttagtacat--acattgccctatcgctattattttctttatttctatttgcttatttatggatacagATACTTCACAGTACTTGTCAATATGGACATGAGTCTACATTCAATGGAAGTTGTGAACAGGCTTACAACAGCAGTTGAACTACCGTCTCAATTCATTCAC
                    | | | ||| |  || |||||     || ||  |      || || |  |  ||   || |   | || | |  |||   | |  || ||| ||| |  ||  || ||||||| ||| ||||||| |||||||||||| ||||||||||||||||| || ||||||||||| ||||| |||||||| ||  |  ||||  | |||
gtatgtttttgtcatgttgatttacctttcttgctttattactgaaatgataagcatcccagcactttaatctttttcttttttttttctgtatttttgctttcctttcttttttgtcaatttagGTACTTCAGAGTTCTTGTCAGTATGGACATGAGCCTACATTCAATGGAAGTCGTTAACAGGCTTACTACAGCGGTTGAACTTCCCACCGAATTTGTACAC

upper sequence: GLYMA10G00610.3 (Glycine max), 3'ss of exon 9
lower sequence: PP1S166_16V6.2 (Physcomitrella patens), 3'ss of exon 9
gtatgcatttttcctctattatattatctgtgctttagtacatacattgccctatcgctattattttctt----tatttctatttgcttatttatggatacagATACTTCACAGTACTTGTCAATATGGACATGAGTCTACATTCAATGGAAGTTGTGAACAGGCTTACAACAGCAGTTGAACTACCGTCTCAATTCATTCAC
 |||  | ||||  ||| | | ||||           ||  ||    | |  | |  |  ||||||| ||    |  ||||| | |  |     ||  | ||| || || | | | || ||||||||||| || ||||| |||||||||||||| |||||| | || |||||| | || || || ||  || | ||  |||| 
-tattgacttttt-tctgt-agattaagcagatagatgtgaatggtctcctttcttacctttattttgttatggttattctaatagaattgggttgcttgcagTTATTTTAAAATGCTGGTCAATATGGATATTAGTCTTCATTCAATGGAAGTAGTGAACCGCCTAACAACAACTGTGGATCTTCCCACTGAGTTTGTTCAT

upper sequence: GLYMA10G00610.3 (Glycine max), 3'ss of exon 9
lower sequence: PP1S82_30V6.1 (Physcomitrella patens), 3'ss of exon 9
gtatgcatttttcctctat-tatattatctgtgctttagtacatacattgccctatcgctatt-attttctttatttctatttgcttatttatggatacagATACTTCACAGTACTTGTCAATATGGACATGAGTCTACATTCAATGGAAGTTGTGAACAGGCTTACAACAGCAGTTGAACTACCGTCTCAATTCATTCAC
 |||| || ||   |  |  | |    |   |  |||  |    | |||| ||| || || |  || |    |  ||||  | |       |    | ||| || || | | | |||||||||||||| || |||||||| || ||||||||||||||  | ||||||||||| || || || ||  || | ||  | || 
ttatg-atgttgaatgaacatttgcgttgcatcgtttcttgtggatattgtcctctccctttccatgtatgatcattctgatagaagtgagacttttgcagCTATTTTAAAATGCTTGTCAATATGGATATTAGTCTACACTCGATGGAAGTTGTGAATCGCCTTACAACAGCTGTGGATCTTCCTACTGAGTTTGTGCAT

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|8403273|gb|BE058907.1|BE058907
EST:     ATTGCAGTTGATGTTCTCACTAAGTTGATAAATTCTCCAGAAATAGCAGA                         ATACTTCACAGTACTTG
genomic: ATTGCAGTTGATGTTCTCACTAAGTTGATAAATTCTCCAGAAATAGCAGAgtatgcattt ... atggatacagATACTTCACAGTACTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattgccctatcgctattattttctttatttctatttgcttatttatggatacagATACTTCACAGTACTTGTCAATATGGACATGAGTCTACATTCAATGGAAGTTGTGAACAGGCTTACAACAGCAGTTGAACTACCGTCTCAATTCATTCAC
              tattattttctttatt  TA-rich tract