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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcaggcacttgcattttatgcctaggtggttcctttgtgcttgattatgacatgcatatatgttgctatagtgtgatttgtgtgtgcctgtgtggtacttagcttcattctaatgtgtcctttgattcaagttgcttgagagagatgcagGTACTGGAGGGAATCCGCTTTTGGGGGAACAAGCTGCTGAGGAATCAAAAGAAGCTATTGCTAATGCTCTTCAAGGCTCGGATTTAGTGTTTGTAACTGC

Basic information

species Glycine max
transcript GLYMA08G43500.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G43500.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os04g56970.1 (Oryza sativa), 3'ss of exon 2
gtcaggcacttgcattttatgcctaggtggttcctttgtgcttgattatgacatgcatatatgt-tgctatagtgtgatttgtgtgtgcctgtgtggtacttagcttcattctaa-tgtgtcctttgattcaagttgcttgagagagatgcagGTACTGGAGGGAATCCGCTTTTGGGGGAACAAGCTGCTGAGGAATCAAAAGAAGCTATTGCTAATGCTCTTCAAGGCTCGGATTTAGTGTTTGTAACTGC
                                              | ||  |    |||  || ||  ||| | | |     |      |   |   |  ||||   ||  | | ||    |  | ||| |  || | ||      || |||||||||| || |||||   |||||| || |||||||||||||||||||||||||| || || ||||| ||  | |  || ||  | || ||  |||| ||
----------------------------------------------tgtgggaaatgtatgagtatgacatattttaagggcagcaaatttcgattcaaaatagcaaaatgttgactgcagtcgctaattta--ttccatgc-----atacagGTACTGGTGGAAATCCTAATTTGGGAGAGCAAGCTGCTGAGGAATCAAAAGAAGCCATAGCCAATGCCCTGAAGGATTCTGACCTTGTCTTCATAACGGC

upper sequence: GLYMA08G43500.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G55280.1 (Arabidopsis thaliana), 3'ss of exon 2
gtcaggcacttgcattttatgcctaggtggttcctttgtgcttgattatgacatgcatatatgttgctatagtgtgatttgtgtgtgcctgtgtggtacttagcttcattctaatgtgtcctttgattcaagttgcttgagagagatgcagGTACTGGAGGGAATCCGCTTTTGGGGGAACAAGCTGCTGAGGAATCAAAAGAAGCTATTGCTAATGCTCTTCAAGGCTCGGATTTAGTGTTTGTAACTGC
                                         ||  |   |  || |   ||| ||| |||||  ||  ||||||| |  |   ||| |||||   | |  | ||  ||    |   ||  | ||| || |         ||| ||||| || || |||||| | || ||||||||||| || ||||||||||| || ||||||||||||||| |||| || ||  | || ||  |||||||
----------------------------------------gttagtagagttatactattat-ttggtatag-atg--ttgtgtgagttt---tggcacttaaagtaa--caaacttgcgtctctgtt--acttgttttaa-------tagGCACTGGTGGAAACCCGCTTCTTGGAGAACAAGCTGCAGAAGAATCAAAAGATGCAATTGCTAATGCTCTTAAAGGATCAGACCTTGTTTTCATAACTGC

upper sequence: GLYMA08G43500.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv19s0090g01320.t01 (Vitis vinifera), 3'ss of exon 2
gtcaggcacttgcattttatgcctaggtggttcctttgtgcttgattatgacatgcatatatgttgctatagtgtgatttgtgtgtgcctgtgtggtacttagcttcattctaatgtgtcctttgattcaagttgcttgagagagatgcagGTACTGGAGGGAATCCGCTTTTGGGGGAACAAGCTGCTGAGGAATCAAAAGAAGCTATTGCTAATGCTCTTCAAGGCTCGGATTTAGTGTTTGTAACTGC
                                                  || |  ||||  | || |||||     ||||| |     ||||| |         |  || || ||| |||||||| ||||    ||| | |||||||||||||| || |||||||| |||||||||||||| ||||||||||||||||| ||||| ||||| ||||||||  | || || ||| | |||||| |||| ||
--------------------------------------------------acttttatatg-ggtggtatagctgcttttgttttcttatgtgttgaggaccttgtggttgtattgtatcctttgactcaaaccacttaatagagatgcagGTACGGGTGGGAATCCACTTTTGGGGGAACAGGCTGCTGAGGAATCAAAGGAAGCCATTGCAAATGCTCTCAAGGGTTCAGATCTTGTGTTTATAACAGC

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|208148893|gb|GD949347.1|GD949347
EST:     TTCTGCTGAGAACCCTATCAAAATTGGAGAGCTTCTGACTCGTGGATTAG                         GTACTGGAGGGAATCCGCTTTTGGGGGAACAAGCTGCTGAGGAATCAAAAG
genomic: TTCTGCTGAGAACCCTATCAAAATTGGAGAGCTTCTGACTCGTGGATTAGgtcaggcact ... agagatgcagGTACTGGAGGGAATCCGCTTTTGGGGGAACAAGCTGCTGAGGAATCAAAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacttagcttcattctaatgtgtcctttgattcaagttgcttgagagagatgcagGTACTGGAGGGAATCCGCTTTTGGGGGAACAAGCTGCTGAGGAATCAAAAGAAGCTATTGCTAATGCTCTTCAAGGCTCGGATTTAGTGTTTGTAACTGC
           attctaat  TA-rich tract