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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttgattattcctacgcaatctttaacatgaaatttaggcttatttattctctttcatattgttatcgtggttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT

Basic information

species Glycine max
transcript GLYMA08G16670.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G16670.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os11g10100.2 (Oryza sativa), 3'ss of exon 5
gtattttgattattcctacgcaatctt--taacatgaaatttaggcttatttattctctttcatattgttatcgtggttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT
||||  |  ||  |   | |  || ||  |    || ||      | | ||  |  |  |||  ||   |          | || |  ||||||||| |||||||| |||||||| || |||||||||||||| |||||||| || || ||||| ||||| || |||
gtatgatacttgatataatggtattttgtttttgtggaacc---acatgttgctcttagttctaatctatgaaacatcacttttctcacagGGATATCAAAGGGGCCAACATACTTGTAGATCCTAATGGTGACATCAAACTTGCTGATTTTGGGATGGCCAAGCAT

upper sequence: GLYMA08G16670.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os04g35700.1 (Oryza sativa), 3'ss of exon 5
gtatttt-gattattcctacgcaatctttaacatgaaatttaggcttatttattctctttcatattgttatcgtggttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT
||| |   |||||| |  |     | ||| ||||    ||     | |   |    | || |     | ||| ||  ||||| || |||| ||||||||||| || |||||||| || |  |||||||||||| ||||||| || |||||||| |||||||| |||
gtagtacagattatccaca---gttgttttacattcctttggtagtaaaagaaataccttaaccacttcatcctg--tttctcttcgcagAGATATTAAAGGTGCTAACATACTTGTCGGCCCTAATGGTGAAGTCAAACTTGCTGACTTTGGCATGGCTAAGCAT

upper sequence: GLYMA08G16670.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g35010.1 (Oryza sativa), 3'ss of exon 5
gtattttgattattcctacgcaatctttaacatgaaatttaggc-ttatttattctctttcatattgttatcgtggttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT
||| | | | |  |||||| |  |   | |  |  |   |||||  |   ||   |  | ||  |||| |   |  |||| | | | ||| || |||||||| || |||||||| || |  |||||||||||| ||||||| || |||||||| ||||||||||||
gtaatgtaaattatcctacactgttagtgattttcatggtaggcactgaatacaatgat-cactttgtaaattttatttt-tgtggacagAGACATTAAAGGAGCAAACATACTTGTGGGCCCTAATGGTGAAGTCAAACTTGCGGACTTTGGCATGGCTAAACAT

upper sequence: GLYMA08G16670.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G140726_T01 (Zea mays), 3'ss of exon 5
gtattttgattattcctacgcaatctttaacatgaaatttaggcttatttattctc---tttcatattgttatcgtggttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT
||  |||  || |    |       | | |    | |  ||   | || ||        |   ||| |  | || |  |||| ||||||||| ||||| ||||| || |||||||| || | ||||||||||||| |||| ||||| |||||||| |||||||| |||
gttgttttgttgtctaaaactgtcttctcattccataggtatagtcatatagcacagaatgcaataatcatgtcatactttt-ttttggcagAGATATCAAAGGAGCAAACATACTCGTGGGTCCTAATGGTGAAGTCAAGCTGGCTGACTTTGGCATGGCTAAGCAT

upper sequence: GLYMA08G16670.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G53570.3 (Arabidopsis thaliana), 3'ss of exon 5
gtattttgattattcctacgcaatctttaacatgaaatttaggcttatttattctctttcatattgttatc-gtggttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT
|||||   |  ||  |  |  ||   || | ||| |||| |   || | | ||||    ||| |  | |   ||  |||| || |  |||||| || ||||| || || ||| |||| ||||| ||||||||||||||  ||||||||||||| ||||| ||||||
gtattcaaa--atgacatcttaaaggttga-atggaattcaa-tttgtctcttcttggacatttaataaagagttattttgttctaacagGGACATCAAAGGAGCAAATATATTAGTGGATCCGAATGGTGAAATCAAGTTGGCAGACTTTGGGATGGCCAAACAT

upper sequence: GLYMA08G16670.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0044g01290.t01 (Vitis vinifera), 3'ss of exon 5
gtattttgattattcctacgcaatctttaacatgaaatt--taggcttatttattctctttcatattgttatcgtggttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT
||| |  | || |   || |  ||   |   |||| |||  |        |||||       |    | ||      |||| |  |||||||||||| |||||||| |||||| |||| |  |||||||| || |||||  |||| || ||||| ||||| ||||||
gtactg-ggttgtggttatg--attacttgtatgagattgctgattcctcttatttctggcaactcagataaatatattttttcatggcagGGATATCAAAGGGGCAAACATATTAGTGGGACCTAATGGGGAGATCAAGTTGGCTGATTTTGGCATGGCAAAACAT

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|254317547|gb|GR826531.1|GR826531
EST:     CAGATTGTCTCTGGACTTGCTTATCTGCATGGAAGAAATACAGTACACAG                         GGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACT
genomic: CAGATTGTCTCTGGACTTGCTTATCTGCATGGAAGAAATACAGTACACAGgtattttgat ... cttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACT
EST: gi|26048798|gb|CA785251.1|CA785251
EST:     CAGATTGTCTCTGGACTTGCTTATCTGCATGGAAGAAATACAGTACACAG                         GGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACT
genomic: CAGATTGTCTCTGGACTTGCTTATCTGCATGGAAGAAATACAGTACACAGgtattttgat ... cttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatttaggcttatttattctctttcatattgttatcgtggttttcttttggcagGGATATTAAAGGGGCGAACATACTAGTTGATCCTAATGGTGAAATCAAACTGGCAGACTTTGGAATGGCTAAACAT
                                         ttttctttt  CT-rich tract
          ttatttattctctttc  TA-rich tract