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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactgcgtttcttgtcacttctttttgcttttgtttaataacagttcttccgagagcttttcttttgggggggcgggcactgatgcatttggtgcaacgatccatggttcagGTTTTTCACAAGCGAATGCCTCCTGAAGCAATTGACCTTGCATCAAGGCTTCTCCAATATTCCCCAAAACTTCGTTACAGTGCA

Basic information

species Glycine max
transcript GLYMA13G36570.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G36570.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os05g11730.1 (Oryza sativa), 3'ss of exon 9
---------------------------------------------------------------------------gtaactgcgtttcttgtcacttctttttgcttttgtttaata-acagttcttccgagagcttttcttttgggggggcgggcactgatgcatttggtgcaacgatccatggttcagGTTTTTCACAAGCGAATGCCTCCTGAAGCAATTGACCTTGCATCAAGGCTTCTCCAATATTCCCCAAAACTTCGTTACAGTGCA
                                                                           ||| ||| | |  ||  || |  |    | || ||   |  | | || | | |   |   | |     |  || || |   || | | |   || |    | | |    |   ||||||| |||||| | ||||||||||||||||| ||||| || ||| | ||||| |||||||| || |  || || | || ||| 
gtaagcatacaatcttatccatgttgagtcatatatcacgtcatcttttatagtttcctggacaactatgaaaatgtagctgggctcatttccaataata---gattctggacaccagatagctttacaatgcaatgtataaataaggaggtgcatacaggtac---tgatttttctaacttctgcgtagGTTTTCCACAAGAGGATGCCTCCTGAAGCAATAGACCTCGCTTCACGCCTTCTTCAATATTCACCGAGTCTCCGCTGCACTGCT

upper sequence: GLYMA13G36570.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g10840.1 (Oryza sativa), 3'ss of exon 9
-------------------------------------------------gtaactgcgtttcttgtcacttctt--tttgcttttgtttaataacagttctt--ccgagagcttttcttttgggggggcgggcactgatgcatttggtgcaacgatccatggt-tcagGTTTTTCACAAGCGAATGCCTCCTGAAGCAATTGACCTTGCATCAAGGCTTCTCCAATATTCCCCAAAACTTCGTTACAGTGCA
                                                 | |   || ||    | ||||||       | || ||  | ||      | |      | |    |   | ||  |  ||    |||||| ||| || ||        | |     ||| |||| |||||| |||||||||| ||||| || |||||||| ||  | |||||||||||||| ||||  || || | || ||| 
gtagccatgttttcttatattggatcaccttcctcataccattttacttgcagg-gcattgtaggccacttcaaaaccagtttctgcatcatgtttaatttgaaataaaaaaaatgtatctgcagctgctta-actgatccatctgttgttctttcgcttaccaccagATTTTCCACAAGAGAATGCCTCCAGAAGCCATAGACCTTGCTTCCCGTCTTCTCCAATATTCACCAAGTCTACGCTGCACTGCT

upper sequence: GLYMA13G36570.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G30980.1 (Arabidopsis thaliana), 3'ss of exon 9
---gtaactgcgttt-cttgtcacttctttttgcttttgtttaataacagttcttccgagagcttttctt--------ttgggggggcgggcactgatgcatttggtgcaac-gatccatgg--ttcagGTTTTTCACAAGCGAATGCCTCCTGAAGCAATTGACCTTGCATCAAGGCTTCTCCAATATTCCCCAAAACTTCGTTACAGTGCA
    ||  |   | | | ||||||||  |    ||| | | |||| | |    | |  |   || | | |        ||   ||    |   || |  |  |  |  |||| | || |||   | |||||||| |||||||| |||||||| ||||| ||||||||||||||  ||||||| ||||| || ||||  || |||| || ||| 
gtaatatatatatatgcatgtcactt--tcgaacttctttctaatcatacaattgcttacttctctacctaaacaacattcatggaaaagaagctaacacggt--gcacaactgctctatgacctccagGTTTTCCACAAGCGGATGCCTCCGGAAGCCATTGACCTTGCATCTCGGCTTCTTCAATACTCACCAAGTCTACGTTGCACTGCG

upper sequence: GLYMA13G36570.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G06390.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaactgcgtttcttgtcacttctttttgcttttgt--ttaataacagttcttccgagagcttttcttttgggggggcgggcactgat-gcatttg--gtgcaacg-atccatgg--ttcagGTTTTTCACAAGCGAATGCCTCCTGAAGCAATTGACCTTGCATCAAGGCTTCTCCAATATTCCCCAAAACTTCGTTACAGTGCA
      |    |||   |  || ||  || ||  |   ||| | |      | || | |   | |   |||  | |     || | || ||||      |  |  | | || ||   | ||||||||||| || || |||||||| |||||||| |||||||||||  ||||||| |||||||| ||||  || || | || ||| 
---gtagttcatctcaccttttgttcctggttaagcaattactgaactcattacctacacagtatacattgaagcgatt--catttatagcatcaaccatatactgtacccttgacctccagGTTTTTCATAAACGGATGCCTCCAGAAGCAATAGACCTTGCATCTCGGCTTCTTCAATATTCACCAAGTCTACGCTGCACTGCG

upper sequence: GLYMA13G36570.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ07216 (Selaginella moellendorffii), 3'ss of exon 10
gtaactgcgtttcttgtcacttctttttgcttttgtttaataacagttcttccgagagcttttcttttgggggggcgggcactgatgcatttggtgcaacgatccatggttcagGTTTTTCACAAGCGAATGCCTCCTGAAGCAATTGACCTTGCATCAAGGCTTCTCCAATATTCCCCAAAACTTCGTTACAGTGCA
                                     ||| | || |  | | |      | ||| |              |||   |  ||| ||   |  ||  ||   |||||||| |||||||| ||||||||||||||| | ||| | |  || ||||| || || |||||||| |  || || | || ||| 
------------------------------------gtaagagcaatcatccggtatatctctctct--------------ctgtctctcttgatgtggc--tcgttga--cagGTTTTCCACAAGCGGATGCCTCCTGAAGCAGTGGACTTGGTGTCGAGGCTGCTTCAGTATTCCCCCAGCCTCCGATGCAATGCC

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|17402010|gb|BM178792.1|BM178792
EST:     ATTATACAGATTTCAGATTCCCCCATATCAAAGCTCATCCTTGGCATAAG                         GTTTTTCACAAGCGAATGCCTCCTGAAGCAATTGACCTTGCATCAAGGCTT
genomic: ATTATACAGATTTCAGATTCCCCCATATCAAAGCTCATCCTTGGCATAAGgtaactgcgt ... catggttcagGTTTTTCACAAGCGAATGCCTCCTGAAGCAATTGACCTTGCATCAAGGCTT
EST: gi|298181881|gb|HO026056.1|HO026056
EST:     ATTATACAGATTTCAGATTCCCCCATATCAAAGCTCATCCTTGGCATAAG                         GTTTTTCACAAGCGAATGCCTCCTGAAGCAATTGACCTTGCATCAAGGCTT
genomic: ATTATACAGATTTCAGATTCCCCCATATCAAAGCTCATCCTTGGCATAAGgtaactgcgt ... catggttcagGTTTTTCACAAGCGAATGCCTCCTGAAGCAATTGACCTTGCATCAAGGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcttttgggggggcgggcactgatgcatttggtgcaacgatccatggttcagGTTTTTCACAAGCGAATGCCTCCTGAAGCAATTGACCTTGCATCAAGGCTTCTCCAATATTCCCCAAAACTTCGTTACAGTGCA
                    cactgat  putative branch site (score: 3)