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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaataataaaaacaatataagtgctttcttgtttgtaaagatttttgctgatcagtacctaattttttgtgcttacatttttttttttttgttatagCCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAACTGGTTCATTAAGAGTTGGGGGTGAATTTTTGGCTAAACACTATCACCAA

Basic information

species Glycine max
transcript GLYMA04G08560.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G08560.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g55540.2 (Oryza sativa), 3'ss of exon 4
-----------------------------------------------------------gttaataataa-aaacaatataagtgctttcttg-------tttgtaaagatttttgctgatcagtacctaattttttgt------gcttaca--------tttttttttttttgttatagCCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAACTGGTTCATTAAGAGTTGGGGGTGAATTTTTGGCTAAACACTATCACCAA
                                                              |||  ||| ||||| || || |   |   |        ||  | |     ||||||  |     | || | || | |        | |||        | |  | ||| |||  | || ||||| |||||||| || |||||  | || ||||| |||||||| ||||||||||| ||||| || || ||||||||| | || |  || |||||  ||
gtgcgttcctgctctcaagaatatatatggtcatatggtttcctcatctgttacctttgaccaattgtaacaaacagtaaaattatctcactaagataacttcttcagatcctttgctacttttggcttattcttgtattaggtaattcacaaaactgattatactatttattggaacagTCCTGCCATTCAAGAGAATAGGGTGGCTACAGTTCAGTGCTTGTCAGGAACTGGTTCTTTAAGGGTGGGAGGTGAATTTCTTGCAAGGCATTATCATGAA
















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|151412423|gb|EV282235.1|EV282235
EST:     CTAGCTGATTTTAATAAATTGAGTGCTAAGCTCATTTTTGGGGCTGACAG                         CCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAAC
genomic: CTAGCTGATTTTAATAAATTGAGTGCTAAGCTCATTTTTGGGGCTGACAGgttaataata ... tttgttatagCCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAAC
EST: gi|192306580|gb|FG996242.1|FG996242
EST:     CTAGCTGATTTTAATAAATTGAGTGCTAAGCTCATTTTTGGGGCTGACAG                         CCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAAC
genomic: CTAGCTGATTTTAATAAATTGAGTGCTAAGCTCATTTTTGGGGCTGACAGgttaataata ... tttgttatagCCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAAC
EST: gi|254321007|gb|GR827456.1|GR827456
EST:     CTAGCTGATTTTAATAAATTGAGTGCTAAGCTCATTTTTGGGGCTGACAG                         CCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAAC
genomic: CTAGCTGATTTTAATAAATTGAGTGCTAAGCTCATTTTTGGGGCTGACAGgttaataata ... tttgttatagCCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAAC
EST: gi|17022645|gb|BM093679.1|BM093679
EST:     CTAGCTGATTTTAATAAATTGAGTGCTAAGCTCATTTTTGGGGCTGACAG                         CCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAAC
genomic: CTAGCTGATTTTAATAAATTGAGTGCTAAGCTCATTTTTGGGGCTGACAGgttaataata ... tttgttatagCCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAAC
EST: gi|192334119|gb|FK026276.1|FK026276
EST:     CTAGCTGATTTTAATAAATTGAGTGCTAAGCTCATTTTTGGGGCTGACAG                         CCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAAC
genomic: CTAGCTGATTTTAATAAATTGAGTGCTAAGCTCATTTTTGGGGCTGACAGgttaataata ... tttgttatagCCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAAC
EST: gi|192326177|gb|FK016279.1|FK016279
EST:     CTAGCTGATTTTAATAAATTGAGTGCTAAACTCATTTTTGGGGCTGACAG                         CCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAAC
genomic: CTAGCTGATTTTAATAAATTGAGTGCTAAGCTCATTTTTGGGGCTGACAGgttaataata ... tttgttatagCCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgctgatcagtacctaattttttgtgcttacatttttttttttttgttatagCCCTGCTATTCAAGACAACAGGGTTACCACTGTTCAATGCTTGTCTGGAACTGGTTCATTAAGAGTTGGGGGTGAATTTTTGGCTAAACACTATCACCAA
                           tgcttac  putative branch site (score: 2)
                    ttttttgtgcttacat  CT-rich tract
                 taattttttgtgctta  TA-rich tract