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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctttcataagaatattatgttatgtcatttctgagaaccaccttgtattccgtttgcctttcattctgctccttttgtttacaagtaagggacgattctgagtcttaataaattgtttgcagATATAACTGTCCTTCGTATTTGTTGCGCAATCTGAAGGAACTTGGATTTAGAGAACCAACACCTATCCAAAGGCAGGCTATTCCAGTACTTCTACAA

Basic information

species Glycine max
transcript GLYMA19G36300.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G36300.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os07g45360.1 (Oryza sativa), 3'ss of exon 3
gtatctttcataagaatattat--gttatgtcatttctgagaaccaccttgta--ttccgtttgcctttcattctgctccttttgtttacaagtaagggacgattctgagtcttaataaattgtttgca---gATATAACTGTCCTTCGTATTTGTTGCGCAATCTGAAGGAACTTGGATTTAGAGAACCAACACCTATCCAAAGGCAGGCTATTCCAGTACTTCTACAA
||   | ||  || |||   |   |||  | |||  || |   |    || ||  | | | |     || | |      | |     |||       ||  |||| | |  | ||    ||| | ||||   | |||   ||    || |||||| |  | ||  ||    |||||||||||  |||||| |||||||||||||||||||| |||||| | ||||||   
gttagtatctgaataattcaaagagttcagacata-ctaaattctttattataggtgctgctacatattaacttcaacacatcatggtaccgtctgaggtggattttaa--cctacctgattttgtgcactagGTATGGTTGCGACTCATATTTGGTTGGAAACTTGTCAAAACTTGGATTTCAAGAACCTACACCTATCCAAAGGCAGGCCATTCCAATTCTTCTATCC

upper sequence: GLYMA19G36300.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0040g02300.t01 (Vitis vinifera), 3'ss of exon 4
gtatctttcataagaatattatgttatgtcatttctgagaaccaccttgtattccgtttgcctttcattctgctccttttgtttacaagtaagggacgattctgagtcttaataaattgttt-gcagATATAACTGTCCTTCGTATTTGTTGCGCAATCTGAAGGAACTTGGATTTAGAGAACCAACACCTATCCAAAGGCAGGCTATTCCAGTACTTCTACAA
                         |    ||| ||   | | || | || |||  ||| | | | |   || | ||  |  ||  |  |   |  | |     |   ||| |   || |||  |||||||   |||   || ||||| |||| |||  ||  |||||||||||||| ||| |||||||| || ||||| ||||||||||||||||| |||   
------------------------aagactattgcttctacctacatggtgttct-tttacttcttaaaatgttact--tagttgtagtttttgatcaacataaaaatttatttggttatttcacagATATGGATGTGAATCATATTTATTGCACAACTTGGCGGAACTTGGATTTAAAGAGCCAACACCAATTCAAAGACAGGCTATTCCAGTACTACTATCT
















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|298188771|gb|HO035464.1|HO035464
EST:     GGTTACAACGTGCCGACTCCGCTTCAAAGCTTTGATGAGTTGAAATCAAG                         ATATAACTGTCCTTCGTATTTGTTACGCAATCTGAAGGAACTTGGATTTAG
genomic: GGTTACAACGTGCCGACTCCGCTTCAAAGCTTTGATGAGTTGAAATCAAGgtatctttca ... ttgtttgcagATATAACTGTCCTTCGTATTTGTTGCGCAATCTGAAGGAACTTGGATTTAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctccttttgtttacaagtaagggacgattctgagtcttaataaattgtttgcagATATAACTGTCCTTCGTATTTGTTGCGCAATCTGAAGGAACTTGGATTTAGAGAACCAACACCTATCCAAAGGCAGGCTATTCCAGTACTTCTACAA
                                   tcttaat  putative branch site (score: 3)
                                   tcttaataaattgttt  TA-rich tract