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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttggattcttgattggctgttttcctatgcttttctttcttatgttacttacactttttgcttatcagGCATGCAGTTCAGCTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGGCCGAGACAACATCTGCAAG

Basic information

species Glycine max
transcript GLYMA07G02170.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G02170.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g62040.2 (Oryza sativa), 3'ss of exon 9
-----------------------gtttggattcttgattggctgttttccta--tgcttttctttcttatg--ttact-tacactttttgcttat--cagGCATGCAGTTCAGCTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGGCCGAGACAACATCTGCAAG
                       ||||   |  |  | |    |  ||  ||  ||   ||  | || |||    ||| || |  ||     | |  |||||||||  |||||||| |||||||||||||| | ||||||||    |||||  |||| || ||| |||||
gagtggaccggtcttaccttccagtttcagtgttctactataagcatttttaattgagattgctactgatgaacgactgtatatcttgaatctcttgcagGCATGCTATTCAGCTGCTATCACCTGCCAGCGTAGTTGCAAAGGCTAATGGGAGAGAAAAGATCAGCAAG

upper sequence: GLYMA07G02170.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G22330.1 (Arabidopsis thaliana), 3'ss of exon 10
-----------gtttggattcttgattggctgttttcctatgcttttcttt-cttatgttacttacactttttgcttatcagGCATGCAGTTCAGCTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGGCCGAGACAACATCTGCAAG
            ||    ||||        | | |     ||  | |   | || |      ||      |||   | ||||||| || || |||||  | || |||||||||||||| || |||||||||||||| ||||| || ||||||
gtactgtcatcattgcttttctaagcaaaatttctgttcgtgaatctaaatactaaaaccttttttgtgctttcactctcagGCACGCTGTGCAGCTTCTGTCTCCTGCCAGCATTGTAGCGAAAATGAATGGCCGTGACAATATTTGCAAG

upper sequence: GLYMA07G02170.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv06s0004g02910.t01 (Vitis vinifera), 3'ss of exon 10
-----gtttggattcttgattggctgttt------tccta--tgcttttctttcttatgttacttaca------ctttttgctt-atcagGCATGCAGTTCAGCTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGGCCGAGACAACATCTGCAAG
      |||| ||| |  ||   ||||        |||||  | |  ||| | |      |||| | |      |||  || |  |||||||||||||||||||| ||||||||||| |||||| | || |  |||||||| ||||||||||| ||||||
gtctgatttgcattttacatattctgtacacaggatcctagctacccttcctcccatgaatactcaaatctaatcttaatgttccatcagGCATGCAGTTCAGCTCTTATCACCTGCTAGCATTATGGCCAGGATGAATGGTCGAGACAACATTTGCAAG

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|298197378|gb|HO044857.1|HO044857
EST:     GAAGAAAGTTTAGCTTTCCTTGGGGAGATTGGACAACGAACATCTTTAAG                         GCATGCAGTTCAGCTGTTATCACCTGCCAGCAT
genomic: GAAGAAAGTTTAGCTTTCCTTGGGGAGATTGGACAACGAACATCTTTAAGgtttggattc ... tgcttatcagGCATGCAGTTCAGCTGTTATCACCTGCCAGCAT
EST: gi|209704962|gb|BW664839.1|BW664839
EST:     GAAGAAAGTTTAGCTTTCCTTGGGGAGATTGGACAACGAACATCTTTAAG                         GCATGCAGTTCAGCTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGG
genomic: GAAGAAAGTTTAGCTTTCCTTGGGGAGATTGGACAACGAACATCTTTAAGgtttggattc ... tgcttatcagGCATGCAGTTCAGCTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggctgttttcctatgcttttctttcttatgttacttacactttttgcttatcagGCATGCAGTTCAGCTGTTATCACCTGCCAGCATTGTTGCAAAAATGAATGGCCGAGACAACATCTGCAAG
                                tacttac  putative branch site (score: 1)
                                        ctttttgctt  CT-rich tract
                 ttttcttt  TA-rich tract