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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacaatttttcttatactttgtttaaagtttaattttaatattcactgttatgttcttaccttcctccattggttgtagGCAAATGTTGCTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATCTTTCTCTGAGAATGGATACTTCCTTGCG

Basic information

species Glycine max
transcript GLYMA10G26870.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G26870.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os10g32880.1 (Oryza sativa), 3'ss of exon 11
---------gtaaacaattt-ttcttatactttgtttaaagtttaattttaatattcact---gttatgtt-cttaccttcctccattggttgtagGCAAATGTTGCTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATCTTTCTCTGAGAATGGATACTTCCTTGCG
              ||| |  |||   | |||| || |    || ||     | | | ||     ||  || || ||  || ||  ||   | ||| |||||||||| | |||||| || |||| ||| ||||| ||||| || || |||||||| ||||| ||||||||||||
gtgtgatactccggcaactcattcaagttcttttttcaggtgttcatgcatgtctgctcttgaaataccttgctaacaatcatcttttttctctagTCAAATGTTGCAAAGTTTGAGGGGCATGTTGGACCAGTGACTGCTATGTCCTTCTCTGAAAATGGTTACTTCCTTGCG

upper sequence: GLYMA10G26870.1 (Glycine max), 3'ss of exon 13
lower sequence: AT2G33340.1 (Arabidopsis thaliana), 3'ss of exon 13
gtaaacaattt---ttcttatactttgt------ttaaagtt--taatttt----aatattcactgttatgttcttaccttcctccattggttgtagGCAAATGTTGCTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATCTTTCTCTGAGAATGGATACTTCCTTGCG
||||| | | |    |   | ||| | |      ||||| ||  ||||| |    | | |||    ||||  | ||   ||  |   ||| |  ||||||||||| |||| ||||||||||||  |||||  ||| || || |||||||||||||| ||||| |||||||| |||
gtaaaaactatgggcttccaaactatatgacctattaaaattattaattgtgtacagtgttcttcattatagttttcatttttttggttgataatagGCAAATGTGGCTAAGTTTGATGGACACACTGGGGAAGTTACAGCTATATCTTTCTCTGAAAATGGTTACTTCCTCGCG

upper sequence: GLYMA10G26870.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv05s0049g01840.t01 (Vitis vinifera), 3'ss of exon 13
gtaaacaatttt-tcttatactttgtttaaagtttaattttaatattcactgttatgttcttacc--ttcctccattggtt-gtagGCAAATGTTGCTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATCTTTCTCTGAGAATGGATACTTCCTTGCG
||||  |||| | ||||  |    ||||||  |    | |||  ||||  | ||   || || |   ||| |   ||  || | |||||||||| || || ||||| || || | |||| | |||||||| ||||||||||| || ||||| ||||||||||||
gtaataaattatgtcttgcaa---gtttaacctgggttgttagaattctttattcacttatttctctttcttttgttaatttgcagGCAAATGTGGCAAGATTTGACGGGCACGTTGGGGCTGTAACTGCTATATCTTTCTCAGAAAATGGTTACTTCCTTGCG

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|58024208|gb|CX710949.1|CX710949
EST:     GTCAAGATTTGGGACGTAAAAAGTCAG                         GCAAATG-TGCCTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATC
genomic: GTCAAGATTTGGGACGTAAAAAGTCAGgtaaacaatt ... ttggttgtagGCAAATGTTG-CTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATC
EST: gi|254349409|gb|GR860207.1|GR860207
EST:     GAACCGGCACCACAGAATCTCTTGTCAAGATTTGGGACGTAAAAAGTCAG                         GCAAATGTTGCTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATCT
genomic: GAACCGGCACCACAGAATCTCTTGTCAAGATTTGGGACGTAAAAAGTCAGgtaaacaatt ... ttggttgtagGCAAATGTTGCTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATCT
EST: gi|208042405|gb|GD840887.1|GD840887
EST:     TAAAAAGTCAG                         GCAAATGTTGCTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATCT
genomic: TAAAAAGTCAGgtaaacaatt ... ttggttgtagGCAAATGTTGCTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATCT
EST: gi|51341959|gb|CO983276.1|CO983276
EST:     GAACCGGCACCACAGAATCTCTTGTCAAGATTTGGGACGTAAAAAGTCAG                         GCAAATGTTGCTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATCT
genomic: GAACCGGCACCACAGAATCTCTTGTCAAGATTTGGGACGTAAAAAGTCAGgtaaacaatt ... ttggttgtagGCAAATGTTGCTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagtttaattttaatattcactgttatgttcttaccttcctccattggttgtagGCAAATGTTGCTAGGTTTGATGGACATGCTGGGCCAGTAACTGCCATATCTTTCTCTGAGAATGGATACTTCCTTGCG
                             ttcttac  putative branch site (score: 2)
                             ttcttaccttcctcca  CT-rich tract
     ttaattttaatattca  TA-rich tract