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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgtctagtactttcacgttttaacgttatgtggcctctttttcattcattttggtcgctagcggatatctttcttgtttctgaatgaataaaatacattgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAACAAAGACCTCTACCTTGGAACTTTCA

Basic information

species Glycine max
transcript GLYMA13G00950.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G00950.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G086573_T01 (Zea mays), 3'ss of exon 7
gtatttgtctagtactttcacgttttaacg--ttatgtggcctctttttcattcattttggtcgctag---cggatatctttcttgtttctgaatgaataaaatacattgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAACAAAGACCTCTACCTTGGAACTTTCA
||   |  ||  | | | |  |||   | |  || |   |   |  |    || ||||| |    | |   |  ||  | |    || |     |  ||  ||| |       |||||| ||||||||||| || ||||||||||| || || || || ||||| ||||| |||||||||||||| || ||||
gtgaata-ctcctgcctgcttgttcccatgcatttttcagttgcagtcatgttaattttagctcttcgtttcacatgccgtctaagtcttgttgtccatgcaattcg------cagACATCACCAGCATGGACGGTGGCAGGCGAGGATCGGAAGGGTGGCCGGTAACAAGGACCTCTACCTTGGGACGTTCA

upper sequence: GLYMA13G00950.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G57390.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatttgtctagtactttcacgttttaacgttatgtggcctctttttcattcattttggtcg--ctagcggatatctttcttgtttc-tgaatgaa-taaaatacattgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAACAAAGACCTCTACCTTGGAACTTTCA
           ||   || |   | ||||   |  ||      |||| |||| |  || |     ||  |  ||| || ||  |    ||| | || |  | | || | || |||||| || |||||||| |||||||||||  |||| || |||||||| || ||||||||||| || ||||| || || |
-----------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|7926119|gb|AW832145.1|AW832145
EST:     AAGAGCAGTGGTTTCTCTAGGGGGGCCTCTATATACAGAGGAGTGACGAG                         ACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA
genomic: AAGAGCAGTGGTTTCTCTAGGGGGGCCTCTATATACAGAGGAGTGACGAGgtatttgtct ... attgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA
EST: gi|7795291|gb|AW780688.1|AW780688
EST:     AAGAGCAGTGGTTTCTCTAGGGGGGCCTCTATATACAGAGGAGTGACGAG                         ACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA
genomic: AAGAGCAGTGGTTTCTCTAGGGGGGCCTCTATATACAGAGGAGTGACGAGgtatttgtct ... attgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA
EST: gi|37995737|gb|CF807326.1|CF807326
EST:     AAGAGCAGTGGTTTCTCTAGGGGGGCCTCTATATACAGAGGAGTGACGAG                         ACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA
genomic: AAGAGCAGTGGTTTCTCTAGGGGGGCCTCTATATACAGAGGAGTGACGAGgtatttgtct ... attgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA
EST: gi|17021856|gb|BM092890.1|BM092890
EST:     AAGAGCAGTGGTTTCTCTAGGGGGGCCTCTATATACAGAGGAGTGACGAG                         ACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA
genomic: AAGAGCAGTGGTTTCTCTAGGGGGGCCTCTATATACAGAGGAGTGACGAGgtatttgtct ... attgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA
EST: gi|6481417|gb|AW200688.1|AW200688
EST:     AAGAGCAGTGGTTTCTCTAGGGGGGCCTCTATATACAGAGGAGTGACGAG                         ACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA
genomic: AAGAGCAGTGGTTTCTCTAGGGGGGCCTCTATATACAGAGGAGTGACGAGgtatttgtct ... attgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtcgctagcggatatctttcttgtttctgaatgaataaaatacattgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAACAAAGACCTCTACCTTGGAACTTTCA
                                            cattgat  putative branch site (score: 4)
                               aatgaataaaatacat  TA-rich tract