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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagatttttgttatctcctatcttgtgtaaattatatatttcaaaagaactggttcatgcttgtgagagatataaattgtgtactagaatgcatgatcatattttgacttatgattttttattgactcttgttttacaatttacagCCTGGTTCAAGGGATGGAACCATCCAGTGTTTCATCAAGAGAGACAAATCTAATCTGACGTACCACCTATTCCTTTGTCTTAGTCCTG

Basic information

species Glycine max
transcript GLYMA16G28200.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G28200.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0072g00630.t01 (Vitis vinifera), 3'ss of exon 1
gtgagatttttgttatctcctatcttgtgtaaattatatatttcaaaagaactggttcatgcttgtgagagatataaattgtgtactagaatgcatgatcatattttgacttatgattttttattgactcttgttttacaatttacagCCTGGTTCAAGGGATGGAACCATCCAGTGTTTCATCAAGAGAGACAAATCTAATCTGACGTACCACCTATTCCTTTGTCTTAGTCCTG
                                          | ||| |  |  ||   || |   || |   |  ||||    | || | ||   |       | ||| |   ||  |  |  ||  |  |   ||    ||||||||| ||  |  ||||||||||||| ||||| ||||| ||||| ||||| || ||  |||| |||||||| |||||||| ||||| ||||
-----------------------------------------cttaaaggctcatgtgtttgtt---gaaaagaaagaatttcccattatattg--gggatgggctatgatt---gacctagttctggtttgt---ttgttgtttacagccagGGCCTCGGGATGGAACCATTCAGTGCTTCATTAAGAGGGACAAGTCCAACTTGACTTACCACCTTTTCCTTTGCCTTAGCCCTG
















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|193729416|gb|FK664292.1|FK664292
EST:     CCAGTCCTGAGTTCTGTGGGAAGATTACTTTCCCTGTCTCCCTGAAGCAG                         CCTGGTTCAAGGGATGGAACCATCCAGTGTTTCATCAAGAGAGACAAATCT
genomic: CCAGTCCTGAGTTCTGTGGGAAGATTACTTTCCCTGTCTCCCTGAAGCAGgtgagatttt ... caatttacagCCTGGTTCAAGGGATGGAACCATCCAGTGTTTCATCAAGAGAGACAAATCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgatcatattttgacttatgattttttattgactcttgttttacaatttacagCCTGGTTCAAGGGATGGAACCATCCAGTGTTTCATCAAGAGAGACAAATCTAATCTGACGTACCACCTATTCCTTTGTCTTAGTCCTG
                            tattgac  putative branch site (score: 2)
     tcatattttgacttat  TA-rich tract