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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cccaacaggaaggatttctcttcgtgcatgttttgaatataccattttgtctttaatggagaaacttgcgatggctaaaacttattggttgccttttcagATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGTTCTCATCTACCTTACAGTCAGCATTCAGTGTTGTCTGATCGTCAAAGAT

Basic information

species Glycine max
transcript GLYMA10G28620.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G28620.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0060g00830.t01 (Vitis vinifera), 3'ss of exon 5
-cccaacaggaaggatttctcttcgtgcatgttttgaatataccattttgtctttaatggagaaacttgcgatggctaaaacttattggttgc-cttttcagATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGTTCTCATCTACCTTACAGTCAGCATTCAGTGTTGTCTGA-TCGTCAAAGAT
 |    |||         || ||  | | | |  |    |  |  ||  |||| |  |||     |      ||   |    ||| |  |||  | | |||||||||||||||||||||||   ||||||||| ||||| || || || ||| | ||||| || |||||||| |||||||| || |||||| |  ||| ||| 
tcatttcagtttctggcactattactac-tatcatagccaatcttttcagtctcttgtggcttctca-atcttgttcattctttacttcttgttcctctcagATGCCAAGAAGCAGATTCAGGCATTTGCCTCCCAGACCATCGCTTCACGGGTTTCATCCACATTACAGTCGGCATTCAGCGTGGTCTGAGTTTTCAGAGA-
















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|192314171|gb|FK011543.1|FK011543
EST:     TCTGACCCTCAGCATTGCAAATATTGTTGGTTTTACCAAATGCAAAAAAG                         ATGCCAAGAAGCAGATTCAACAATTTGCCTTTCAGACAATTGCCTCTCGGT
genomic: TCTGACCCTCAGCATTGCAAATATTGTTGGTTTTACCAAATGCAAAAAAGgtcagtaagt ... gccttttcagATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGT
EST: gi|192322592|gb|FK014713.1|FK014713
EST:     TCTGACCCTCAGCATTGCAAATATTGTTGGTTTTACCAAATGCAAAAAAG                         ATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGT
genomic: TCTGACCCTCAGCATTGCAAATATTGTTGGTTTTACCAAATGCAAAAAAGgtcagtaagt ... gccttttcagATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGT
EST: gi|208210429|gb|GE014290.1|GE014290
EST:     TCTGACCCTCAGCATTGCAAATATTGTTGGTTTTACCAAATGCAAAAAAG                         ATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGT
genomic: TCTGACCCTCAGCATTGCAAATATTGTTGGTTTTACCAAATGCAAAAAAGgtcagtaagt ... gccttttcagATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGT
EST: gi|192333423|gb|FK023952.1|FK023952
EST:     TCTGACCCTCAGCATTGCAAATATTGTTGGTTTTACCAAATGCAAAAAAG                         ATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGT
genomic: TCTGACCCTCAGCATTGCAAATATTGTTGGTTTTACCAAATGCAAAAAAGgtcagtaagt ... gccttttcagATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGT
EST: gi|58025339|gb|CX712080.1|CX712080
EST:     TCTGACCCTCAGCATTGCAAATATTGTTGGTTTTACCAAATGCAAAAAAG                         ATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGT
genomic: TCTGACCCTCAGCATTGCAAATATTGTTGGTTTTACCAAATGCAAAAAAGgtcagtaagt ... gccttttcagATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGT
EST: gi|41145422|gb|CK605633.1|CK605633
EST:     TCTGACCCTCAGCATTGCAAATATTGTTGGTTTTACCAAATGCAAAAAAG                         ATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGT
genomic: TCTGACCCTCAGCATTGCAAATATTGTTGGTTTTACCAAATGCAAAAAAGgtcagtaagt ... gccttttcagATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGT
EST: gi|192326657|gb|FK017314.1|FK017314
EST:     TCTGACCCTCAGCATTGCAAATATTGTTGGTTTTACCAAATGCAAAAAAG                         ATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGT
genomic: TCTGACCCTCAGCATTGCAAATATTGTTGGTTTTACCAAATGCAAAAAAGgtcagtaagt ... gccttttcagATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtctttaatggagaaacttgcgatggctaaaacttattggttgccttttcagATGCCAAGAAGCAGATTCAACAATTTGCCTCTCAGACAATTGCCTCTCGGTTCTCATCTACCTTACAGTCAGCATTCAGTGTTGTCTGATCGTCAAAGAT
                           ggctaaa  putative branch site (score: 3)
                                           ttgccttttc  putative PPT
                              taaaacttatt  TA-rich tract