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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttctttctatctttctatctactcttattacttcattccatttatttatttgtgctcttcaattgcagAATCTTCTCTCCAGACTCTGCTTGCGAGGTCATCGAAGCTGAAAGGCATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATT

Basic information

species Glycine max
transcript GLYMA08G05260.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G05260.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G16020.2 (Arabidopsis thaliana), 3'ss of exon 2
----------------------------------------------------------------------------------------------------gtttctttctatctttctatc--tactct-tattacttcattccatttattta---tttgtgct-cttcaattgcagAATCTTCTCTCCAGACTCTGCTTGCGAGGTCATCGAAGCTGAAAGGCATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATT
                                                                                                     ||   |        |  |||  || ||| | |   |    | ||| | || |   || |||   ||   | |||||| | |||||||| ||  | ||||| || || |||||||| ||||| ||||| ||||||||||| ||||| ||||| ||||||||||| || || 
gtcagctgctatagattcttcttctttttgaacactgtgagatgtgtttttacaattgctggtgatctagatttggttgcatttgtgacttgttcgataaattaagtcagggtcgttaatcgatagtctgtgtagatcttcttcatgttttgaggcttggtgtgactattaatgcagACTTTTCTCTCCGGAGGCGGCTTGTGAAGTGATCGAAGCAGAAAGACATTCCCATGTTTTCTATGAGGCTGAACCTGATATCTGGATGGTTATG

upper sequence: GLYMA08G05260.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G80910.1 (Arabidopsis thaliana), 3'ss of exon 2
----------------------------------------------------------------------------------gtttctttctatctttctatctactcttattacttcattccatttatttatttgtgctcttcaattgcagAATCTTCTCTCCAGACTCTGCTTGCGAGGTCATCGAAGCTGAAAGGCATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATT
                                                                                   ||      |||     | ||   | || ||   |  | |       |  ||| ||   |  ||   |||| | ||||| || ||  | ||||| ||||| || ||||| || || ||||| ||||||||||| |||||||| |||||||||||||| ||||| 
gttagctactagagattttccttctttacacagatttttcgagttcatggattgattgatgttgtctcatgttcacataaattttgagcgttattagcttttcctgtattgttgggtgttcctgagacgtggtttatggaatataaacacagACTTTTCTCCCCGGAGGCAGCTTGTGAGGTAATTGAAGCAGAGAGACATTCCCATGTTTTCTATGAGGCCGAGCCCGATATCTGGATGGTCATG

upper sequence: GLYMA08G05260.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0011g06030.t01 (Vitis vinifera), 3'ss of exon 1
--------------------gtttctttctatctt--tctatctactcttattac---ttcattccatttatttatttgtgct-cttcaatt----gcagAATCTTCTCTCCAGACTCTGCTTGCGAGGTCATCGAAGCTGAAAGGCATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATT
                    ||       |  |||  || || |   || |||     ||  ||||| |||||||   |     | ||  ||    |||||||||| ||||||||  ||||||| ||||| || ||||| || |||||||||||||||||  |  |||| || || ||||| ||||| ||||| 
tgatttgatttccatgtggtgtccaaacatgccttgatcaatttttcctcattgtctattgtttccagttatttaaaggcataacatcggttttgtgcagAATCTTTTCTCCAGAGGCTGCTTGTGAGGTTATAGAAGCAGAGAGGCATTCTCATGTTTTTCATCAGGCTGAGCCAGATATTTGGATGGTCATG

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|208143303|gb|GD943217.1|GD943217
EST:     AGGACTCATCACTTTCACTAG                         AATCTTCTCTCCAGACTCTGCTTGCGAGGTCATCGAAGCTGAAAGGCATTC
genomic: AGGACTCATCACTTTCACTAGgtttctttct ... tcaattgcagAATCTTCTCTCCAGACTCTGCTTGCGAGGTCATCGAAGCTGAAAGGCATTC
EST: gi|298179837|gb|HO025052.1|HO025052
EST:     AAGCAACTCTCCGTCATTGGCCTCAGCGAAGGACTCATCACTTTCACTAG                         AATCTTCTCTCCAGACTCTGGCTTGCGAGGTCATCGAAGCTGAAAGGCACT
genomic: AAGCAACTCTCCGTCATTGGCCTCAGCGAAGGACTCATCACTTTCACTAGgtttctttct ... tcaattgcagAATCTTCTCTCCAGACTCTG-CTTGCGAGGTCATCGAAGCTGAAAGGCATT
EST: gi|6454473|gb|AW185156.1|AW185156
EST:     AAGCAACTCTCCGTCATTGGCCTCAGCGAAGGACTCATCACTTTCACTAG                         AATCTTCTCTCCAGACTCTGCTTGCGAGGTCATCGAAGCTGAAAGGCATTC
genomic: AAGCAACTCTCCGTCATTGGCCTCAGCGAAGGACTCATCACTTTCACTAGgtttctttct ... tcaattgcagAATCTTCTCTCCAGACTCTGCTTGCGAGGTCATCGAAGCTGAAAGGCATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctatctactcttattacttcattccatttatttatttgtgctcttcaattgcagAATCTTCTCTCCAGACTCTGCTTGCGAGGTCATCGAAGCTGAAAGGCATTCTCATGTTTTCTACGAGGCCGAACCCGATATCTGGATAGTCATT
                                       tgctcttc  CT-rich tract
           ttattacttcattcca  TA-rich tract