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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgtctagtactttcacgttttaacgttatgtggcctctttttcattcattttggctgctagcggatatctttttgattctgaatgaataaaaataaattgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAACAAAGACCTCTACCTTGGCACTTTCA

Basic information

species Glycine max
transcript GLYMA17G07010.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G07010.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G086573_T01 (Zea mays), 3'ss of exon 7
gtatttgtctagtactttcacgttttaacg--ttatgtggcctctttttcattcattttggctgctagcgg-atat-ctttttgattctgaatgaataaaaataaattgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAACAAAGACCTCTACCTTGGCACTTTCA
||   |  ||  | | | |  |||   | |  || |   |   |  |    || ||||| |||  | |    | || |  | | | |||   ||  |  |   || | |   |||||| ||||||||||| || ||||||||||| || || || || ||||| ||||| |||||||||||||| || ||||
gtgaata-ctcctgcctgcttgttcccatgcatttttcagttgcagtcatgttaattttagctcttcgtttcacatgccgtctaagtcttgttg--tccatgcaattcg---cagACATCACCAGCATGGACGGTGGCAGGCGAGGATCGGAAGGGTGGCCGGTAACAAGGACCTCTACCTTGGGACGTTCA

upper sequence: GLYMA17G07010.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G57390.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatttgtctagtactttcacgttttaacgttatgtggcctctttttcattcattttggctg--ctagcggatatctttttgattc--tgaatgaataaaaataaattgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAACAAAGACCTCTACCTTGGCACTTTCA
           ||   || |   | ||||   |  ||      |||| |||| |  ||  |    ||  |  ||| ||  | ||    ||| | ||    | |  | | || |||||| || |||||||| |||||||||||  |||| || |||||||| || ||||||||||| || |||||||| || |
-----------gtttgtttattctctaac--cagttga-----ttttaattcttaatgattaaattaatgtgtatgttcctaataaaatgattcaactttattgcaataatgcagACATCATCAGCATGGTCGATGGCAGGCACGAATTGGAAGAGTTGCAGGCAACAAAGACCTTTATCTTGGCACATTTA
















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|14259589|gb|BG882497.1|BG882497
EST:     AAGAGCAGTGGTTTCTCTAGAGGGGCCTCTATATACAGAGGAGTAACGAG                         ACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA
genomic: AAGAGCAGTGGTTTCTCTAGAGGGGCCTCTATATACAGAGGAGTAACGAGgtatttgtct ... attgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA
EST: gi|298165452|gb|HO011501.1|HO011501
EST:     GGGGCCTCTATATACAGAGGAGTAACGAG                         ACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA
genomic: GGGGCCTCTATATACAGAGGAGTAACGAGgtatttgtct ... attgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA
EST: gi|14259710|gb|BG882618.1|BG882618
EST:     AAGAGCAGTGGTTTCTCTAGAGGGGCCTCTATATACAGAGGAGTAACGAG                         ACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA
genomic: AAGAGCAGTGGTTTCTCTAGAGGGGCCTCTATATACAGAGGAGTAACGAGgtatttgtct ... attgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggctgctagcggatatctttttgattctgaatgaataaaaataaattgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAACAAAGACCTCTACCTTGGCACTTTCA
                                            aattgat  putative branch site (score: 4)
             atatctttttgattct  TA-rich tract