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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggctctacttttctttggccttttaaggctatgattatgcatgttgacttgtttttgtttgctggcttagtacatgcaattgtatataagttgttttttaaatgacttgctttatattcaatattttcagGTACTAGCTGACGCCATTGATTTACCATGTCGAATTGCTAAGGGCTGTAAATATTGCAAAAGGGATGATGCTACATCTTGTCTTGTTCGATTTGGGCTTG

Basic information

species Glycine max
transcript GLYMA13G21480.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G21480.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os09g39320.1 (Oryza sativa), 3'ss of exon 3
gtaaggctctacttttctttggccttttaaggctatgattatgcatgttgacttgtttttgtttgctggcttagtacatgcaattgtatataagttgttttttaaatgacttgctttatattcaatattttcagGTACTAGCTGACGCCATTGATTTACCATGTCGAATTGCTAAGGGCTGTAAATATTGCAAAAGGGATGATGCTACATCTTGTCTTGTTCGATTTGGGCTTG
                          | ||  |   | ||    | | ||| | ||  |  ||   |  | |  | | | |     | |   |||| |   | | ||  |||  |  |   |  |||||  ||| |  |||| ||     |  || | |||||  || | |  |||||||||||||| |||||||| |||||||| || || || || || || ||||||||||
--------------------------tcaatacatagcttggcaaggatgaatagtcataattgttttacgtgttccctac-----tttgagagttttgagtcatat--cttattgaagcctgtatattg-cagATGTTAGCAGATAAAGTCAATGTTCCATGCAGAGTAGTCAAGGGCTGTAAATACTGCAAAAGTGATGATGCCACCTCCTGCCTCGTACGCTTTGGGCTTG

upper sequence: GLYMA13G21480.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G03730.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaaggctctacttttctttggccttttaaggctatgattatgcatgttgacttgtttttgtttgctggcttagtacatgcaattgtatataagttgttttttaaatgacttgctttatattcaatattttcagGTACTAGCTGACGCCATTGATTTACCATGTCGAATTGCTAAGGGCTGTAAATATTGCAAAAGGGATGATGCTACATCTTGTCTTGTTCGATTTGGGCTTG
                         |  || |   || |  ||  |    |    |   |   || | | | | |   | |||    | | ||   || ||||| ||        || ||||   |   | |||||||| ||||||   ||||||||||| ||||||||||| || || ||||||||||| || || || |||||  | || || |||||  | ||||||||||
----------------------atgtgaaaagtggtgttattgattagaaaaaaataggttactgatagttgaatgt-tccaa----agaaaaaaagtattttatat-------cttctatttggtgcatgcagGTACTGGCTGACATAATTGATTTACCCTGTCGAATTGCCAAAGGATGTAAATATTGTAATAGAGACGATGCCGCTTCGTGCCTTGTCAGGTTTGGGCTTG
















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|254346793|gb|GR856515.1|GR856515
EST:     TAGGTAGTCTATCTGTTGGCCTCTGCCGGCATCGTGCTATATTATTCAAA                         GTACTAGCTGACGCCATTGATTTACCATGTCGAATTGCTAAGGGCTGTAAA
genomic: TAGGTAGTCTATCTGTTGGCCTCTGCCGGCATCGTGCTATATTATTCAAAgtaaggctct ... atattttcagGTACTAGCTGACGCCATTGATTTACCATGTCGAATTGCTAAGGGCTGTAAA
EST: gi|21601177|gb|BQ611508.1|BQ611508
EST:     TAGGTAGTCTATCTGTTGGCCTCTGCCGGCATCGTGCTATATTATTCAAA                         GTACTAGCTGACGCCATTGATTTACCATGTCGAATTGCTAAGGGCTGTAAA
genomic: TAGGTAGTCTATCTGTTGGCCTCTGCCGGCATCGTGCTATATTATTCAAAgtaaggctct ... atattttcagGTACTAGCTGACGCCATTGATTTACCATGTCGAATTGCTAAGGGCTGTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaattgtatataagttgttttttaaatgacttgctttatattcaatattttcagGTACTAGCTGACGCCATTGATTTACCATGTCGAATTGCTAAGGGCTGTAAATATTGCAAAAGGGATGATGCTACATCTTGTCTTGTTCGATTTGGGCTTG
                                              tattttc  CT-rich tract
                  ttttttaaatgacttg  TA-rich tract