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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattattttatcatgaattagctctttcgtgtgtgccattttcattgaatgctaaaaaaaatgttgtggttttgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTTCTAAGTACAAAATATGCTTCAATGGTGAATT

Basic information

species Glycine max
transcript GLYMA08G15480.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g73310.1 (Oryza sativa), 3'ss of exon 4
------------------------------------------------gtgattattttatcatgaa-----ttagctctttcgtgtgtgcca--ttttcattgaa------tgctaaaaaaaatgttgtggttttgc-----------------agATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCT-AACTTCTAAGTACAAAATATGCTTCAATGGTGAATT
                                                 | | || || || |  ||     || | |  || ||     |||  || |  || ||      ||||||   | ||||  |   |||||                 |||||||||| || || | ||| |||||||| ||||||||| | ||||| |||||||||||||||| |  |||| |        | ||| ||  |  || | |
gtaagtccttatcattacagcttcttagatgctcaccagaattagttcataactacttcataaccaatccattttgtttatttgtccacaccaagttgtattttaatggttttgctaatgcacatgtgatttgtttgcttggcattgataaaaacagATGTGGATATCGAAGGATGAGTATGATGAATCTGGCCCAGCAATTGTTCACAGGAAGTGCTTCTGAGTTTCTCATGCTGCCCTGTGCGTCGGTT-TGTACT

upper sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g61970.1 (Oryza sativa), 3'ss of exon 4
---------gtgattattttatcatgaattagctctttcgtgtgtgccattttcattgaatgctaaaaaaa-------atgttgtggtttt-------gcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTTCTAAGTACAAAATATGCTTCAATGGTGAATT-
          |||||||    | || || ||| |    | |   |      | ||   |||| || | |||       ||  |||  ||||       |||||||||||| ||||| || || |||||||| || ||||| || || ||||||||||| ||||||||| | | |         |  |  |    ||||     
atttgctatttgattatgccctaataaactagattacacattaattttgaatgca--aaatgttagataaagacacttatcctgttctttttcctgtcgcagATGTGGATATCTAAGGGAGAGTATGATGAATCCGGCCCTTCAATCGTCCACAGGAAATGCTTCTAA-TCCGAGCCTTGCTCTGAGTATTTTCGGTGTGCCT

upper sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os10g36650.1 (Oryza sativa), 3'ss of exon 4
------------------gtgattattttatcatgaattagctctttcgtgtgtgccattttcattgaatgctaaaaaaaatgttgtggttttgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTTCTAAGTACAAAATATGCTTCAATGGTGAATT--
                      ||| ||  | ||  | |  ||   | ||  | |    ||   ||||    |          || |  || ||||||||||||| || |  | ||| ||||| || ||||||||| | || ||||||||||||||||||||  |      ||     |||  |||| ||   |     
gtaatgcaaaatcatccaacagttaattcttgatacactttctagattgttcgagaaggttc--ttgacatatgtttctttccttttttttgtgcagATGTGGATCTCAAGGGCTGAGTATGAAGAATCTGGCCCAGCTATCGTCCACAGGAAGTGCTTCTAGATGTGGCCTA-GCTGTATCTTTCA-TGAGAACCCCT

upper sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os11g06390.6 (Oryza sativa), 3'ss of exon 4
---------gtgattattttatcatgaattagctctttcgtgtgtgccattttcattgaatgctaaaaaaaatgttgtgg------ttttgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTTCTAAGTACAAAAT-ATGCTTCAATGGTGAATT
           |  ||   | | ||||  ||||      |   ||   ||||    |   || ||| |  | | || |||      |  | ||||||||||| || || || || ||||||||||| || ||| | ||||| ||| ||||||||||||||  |||   |    |||      || |    | |  
gtaaaccttacgcctacact-ttatgaggtagcaagaatgcaggt---atttctgctttctgttaacatcattcttttggcatctatgctacagATGTGGATCTCAAAGGGAGAGTATGATGAGTCGGGTCCAGCAATTGTTCACCGGAAGTGCTTCTAAGCTCTGGCTTTTTAATCGCTTATCTACAAGGCAG-

upper sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G030169_T02 (Zea mays), 3'ss of exon 4
-------------------------------------------------------------------gtgattattttatcatgaattagctctttcgtgtgtgccatttt--cattgaatgctaaaaaaaatgttgtggttttgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTTCTAAGTACAAAATATGCTTCAATGGTGAATT
                                                                     | |    ||     |||   | |  || |||   || | | |  |||| | | |        || || |   | ||||||||||||| || |  | ||| ||||| |||||||| ||| | |||||||||||||||||||||||      |          |     |  || |  || 
gtaacaccaagtcttccgacggctgttctgtatccacaatctatgtttatttgtgaaaatgcacctcacggtagggttgcggagaaaaggtttatttgtgaa-gctactctgacattaagtcc--------atcttttccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCACAGGAAGTGCTTCTAGACGTCACTCCTCGTGGAAATGCCTTTGTTTCATG

upper sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G082484_T01 (Zea mays), 3'ss of exon 4
------gtgattattttatca--tgaattagctctttcgtgtgtgccattttcattgaatgctaaaaaaaat----gttgtggttttgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTTCTAAGTACAAAATATGCTTCAATGGTGAATT
         | | ||    |   |    |   |||    | || | |  |||  |  | | || | | || |    ||| |   | ||||||||||||| || |  | ||| ||||| |||||||| ||| | |||||||||||||||||||||||      |  ||      || || |  |||  |   
gtaacaccaagttttccggcggctattctgtatctactatctgagtctattttgtgaagttctgacataagttcttgttttccctgtgcagATGTGGATCTCAAGGGCTGAGTATGAGGAGTCTGGTCCAGCTATTGTCCACAGGAAGTGCTTCTAGACGTCACCTAGCCTTAATTCTCCTCTGGAAATAC

upper sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G067985_T05 (Zea mays), 3'ss of exon 5
----------------------------------gtgattattttatcatgaattagctctttcgtgtg-tgccattttcattgaatgctaa-aaaaaatgttgt-ggttttgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTTCTAAGTACAAAATATGCTTCAATGGTGAATT
                                  |   ||  ||| || |||| | |   | |  ||    |  ||      ||| | ||   |  |  ||   | | |||  ||||||||||| ||||| |  || || ||||||||||||||  | ||||| |||||||||||||||||   |                               
gtatgttgtattgtttatattactttcagctgctgcattttatttctc-tgaactcgtattatgatgaaacgaaataacttctgagttctgttatgacgtgcccttgatttaccagATGTGGATATCTAAGGAGGAGTACGATGAGTCTGGCCCGGCAATTGTTCACAGGAAGTGCTTCTAGGCT-------------------------------

upper sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G067985_T02 (Zea mays), 3'ss of exon 4
----------------------------------gtgattattttatcatgaattagctctttcgtgtg-tgccattttcattgaatgctaaaaaaa-atgttgt-ggttttgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTTCTAAGTACAAAATATGCTTCAATGGTGAATT----
                                  |   ||  ||| || |||| | |   | |  ||    |  ||      ||| | ||   |  |  ||   | | |||  ||||||||||| ||||| |  || || ||||||||||||||  | ||||| |||||||||||||||||   |       |||  |   | ||  ||   | |     
gtatgttgtattgtttatattactttcagctgctgcattttatttctc-tgaactcgtattatgatgaaacgaaataacttctgagttctgttatgacgtgcccttgatttaccagATGTGGATATCTAAGGAGGAGTACGATGAGTCTGGCCCGGCAATTGTTCACAGGAAGTGCTTCTAGGCTTCG----CAAGTTCCTCATCGTTGCCTAGTCTCAA

upper sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G067985_T07 (Zea mays), 3'ss of exon 4
----------------------------------gtgattattttatcatgaattagctctttcgtgtg-tgccattttcattgaatgctaa-aaaaaatgttgtggttttgc-agATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTTCTAAGTACAAAATATGCTTCAATGGTGAATT
                                  |   ||  ||| || |||| | |   | |  ||    |  ||      ||| | ||   |  |  ||   | | ||| | |||||||||| ||||| |  || || ||||||||||||||  | ||||| |||||||||||||||||                                   
gtatgttgtattgtttatattactttcagctgctgcattttatttctc-tgaactcgtattatgatgaaacgaaataacttctgagttctgttatgacgtgcccttgatttaccagATGTGGATATCTAAGGAGGAGTACGATGAGTCTGGCCCGGCAATTGTTCACAGGAAGTGCTTCTAG----------------------------------

upper sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G104017_T04 (Zea mays), 3'ss of exon 4
---------------------------------gtgattattttatcatgaattagctctttcgt--gtgtgccattttcattgaatgcta--aaaaaaatgttgtggttttgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTTCT--AAGTACAAAATATGCTTCAATGGTGAATT
                                 |   ||  ||| |  | | | ||     | ||     ||  |        |||| ||      |    |   || | |  ||||||||||| || || |  || |||||||||||||||||  | || ||||||||||||||||||||  |||   |||| |   ||     || |   | ||  
gtatgcggttgtttatatctactttcagctgctgcacttcatttgttttaactcagtaacatggttgaaatgataacacttccgaattctgttgtgatgtggcattgatgtaccagATGTGGATATCCAAGGAGGAGTATGATGAGTCTGGCCCGGCAATCGTCCACAGGAAGTGCTTCTAGGTTCCGCAAGTTCCTCATTGTTATCTAGTCTCAA--

upper sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G110378_T05 (Zea mays), 3'ss of exon 4
-------------------------------gtgattattttatcatgaattagctctttcgtgtgtgccattttca---ttgaatgctaa-aaaaaatgttgt-ggttttgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTTCTAAGTACAAAATATGCTTCAATGGTGAATT
                               |   ||  ||| |  | || |  |  | | |  ||   ||   |||    ||||| ||   |    |||   | | |||  ||||||||||| || || |  || || ||||||||||||||  | ||||| |||||||||||||||||  ||                               
gtatgggttgtttatattgctttcagctgctgcacttgatttctttttaactcccaatatggc-tgaaacaaagtcacgtctgaattctgttatgcgatgccattgatttaccagATGTGGATATCAAAGGAGGAGTACGATGAGTCTGGCCCGGCAATTGTTCACAGGAAGTGCTTCTAGGTT-------------------------------

upper sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G110378_T04 (Zea mays), 3'ss of exon 5
-------------------------------gtgattattttatcatgaattagctctttcgtgtgtgccattttcat---tgaatgctaa-aaaaaatgttgt-ggttttgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTT----CTAAGTACAAAATATGCTTCAATGGTGAATT
                               |   ||  ||| |  | || |  |  | | |  ||   ||   |||    ||||| ||   |    |||   | | |||  ||||||||||| || || |  || || ||||||||||||||  | ||||| |||||||||||||||||  ||    | |||| |   |  |||||  | |||     
gtatgggttgtttatattgctttcagctgctgcacttgatttctttttaactcccaatatggc-tgaaacaaagtcacgtctgaattctgttatgcgatgccattgatttaccagATGTGGATATCAAAGGAGGAGTACGATGAGTCTGGCCCGGCAATTGTTCACAGGAAGTGCTTCTAGGTTTCTGCCAAGTTCGTCAAGTGCTTTTAGGGTT----

upper sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 3'ss of exon 4
---------gtgattat-tttatcatgaattagctctttcgtgtgtgccattttcattgaatgctaaaaaaaatgttgtggttttg---------cagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTTCTAAGTACAAAATATGCTTCA--ATGGTGAATT
            |||     | |    || |  |   | | | | ||  |  |   |  ||      |||   |||| || || ||         |||||||||||||| ||  |||| || |||||||| || ||||| ||||| |||||||| ||||||||| |      |     || || |||    ||||||   
gtaaaaatcccaattccgcctctttaaaactttcagctccatttatgaaacatgagtgaaaatactgaaattttgttttgtttgtgtgtgtgaatcagATGTGGATTTCAAAGAGTGAGTACGATGAGTCAGGTCCATCGATTGTTCACAGGAAATGCTTCTAAGTGTGTCTTGTCTTATCTGGTTCGTGGTGGTGAG--

upper sequence: GLYMA08G15480.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0044g00580.t01 (Vitis vinifera), 3'ss of exon 5
gtgattattttatcatgaattagctcttt-cgtgtg---tgccattttcattgaatgctaaaaaaaatgttgtggttt-tgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTTCTAAGTACAAAATATGCTTCAATGGTGAATT-------
|||||| |  | |  ||  || | | ||| |   ||   ||    ||| |||| ||| ||  || |   || | |||  | ||||||||||| || || |||||||||||||| ||||| |||||||||||||||||||||||||||||| |    | |||||    |||||  ||||||| ||       
gtgattttcattttttgtttttggtttttacaaatggtttgattcttttattgcatgatactaacatgctttttgttggtacagATGTGGATCTCAAAGGGTGAATATGATGAATCTGGTCCATCCATTGTCCACAGGAAGTGCTTCTAAGT----AATACAA---GTGCTTTGATGGTGAGTTCCTTTTT

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|8284319|gb|BE021878.1|BE021878
EST:     GTGTCTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAGCAG                         ATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAGCAGgtgattattt ... ggttttgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCAC
EST: gi|26049076|gb|CA785529.1|CA785529
EST:     GTGTCTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAGCAG                         ATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAGCAGgtgattattt ... ggttttgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCAC
EST: gi|12774552|gb|BG239479.1|BG239479
EST:     GTGTCTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAGCAG                         ATGTGGATTTCTAAAG-TGAATATGATGAGTCTGGCCCATCCATTGTCCAC
genomic: GTGTCTGGATTGGAGGATCAATCCTTGCATCCCTCAGCACCTTCCAGCAGgtgattattt ... ggttttgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttcgtgtgtgccattttcattgaatgctaaaaaaaatgttgtggttttgcagATGTGGATTTCTAAAGGTGAATATGATGAGTCTGGCCCATCCATTGTCCACAGGAAGTGCTTCTAACTTCTAAGTACAAAATATGCTTCAATGGTGAATT
                           tgctaaa  putative branch site (score: 2)
                         aatgctaaaaaaaat  TA-rich tract