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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttaatattttattaaaccacgtatcatggggattttaagtaactttttctacttatgtttcttatttgtattctactcttgtctgcctttgtagGATGAATATTCAGAGTGGGTGATTGCCTCTCAGAGAAGTCTCCTTGAGGTCATGGCTGAATTTCCATCAGCCAAACCTCCAATTGGTGTCTTTTTTGCAG

Basic information

species Glycine max
transcript GLYMA17G07050.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G07050.2 (Glycine max), 3'ss of exon 11
lower sequence: Vv11s0052g00880.t01 (Vitis vinifera), 3'ss of exon 11
gtttaatattttattaaaccacgtatcatggggattttaagtaactttttctacttatgtttcttatttgtattctactcttgtctgcctttgtagGATGAATATTCAGAGTGGGTGATTGCCTCTCAGAGAAGTCTCCTTGAGGTCATGGCTGAATTTCCATCAGCCAAACCTCCAATTGGTGTCTTTTTTGCAG
|||    |||||  |      |  ||| | |  ||   || |    ||  ||  |||||  ||| ||  | ||        |||     |||  ||||||||||| || | |||||  ||||   ||||||||||||||||||| | ||||||||||| ||||||||||| |||||| |||| || || |||||||
gttgggaattttcatg-----cagatctttgatatgaaaactgg--ttcccttgttatgcctctcatgagaata-------tgt-----tttacagGATGAATATGCACAATGGGTAGTTGCAAGTCAGAGAAGTCTCCTTGAGATAATGGCTGAATTCCCATCAGCCAAGCCTCCACTTGGAGTTTTCTTTGCAG
















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|14125979|gb|BG790417.1|BG790417
EST:     ATCCATCTGAAGCTGATCGACTAAGACATCTTGCCTCACCTGCTGGAAAG                         GATGAATATTCAGAGTGGGTGATTGCCTCTCAGAGAAGTCTCCTTGAGGTC
genomic: ATCCATCTGAAGCTGATCGACTAAGACATCTTGCCTCACCTGCTGGAAAGgtttaatatt ... gcctttgtagGATGAATATTCAGAGTGGGTGATTGCCTCTCAGAGAAGTCTCCTTGAGGTC
EST: gi|254332042|gb|GR846245.1|GR846245
EST:     ATCCATCTGAAGCTGATCGACTAAGACATCTTGCCTCACCTGCTGGAAAG                         GATGAATATTCAGAGTGGGTGATTGCCTCTCAGAGAAGTCTCCTTGAGGTC
genomic: ATCCATCTGAAGCTGATCGACTAAGACATCTTGCCTCACCTGCTGGAAAGgtttaatatt ... gcctttgtagGATGAATATTCAGAGTGGGTGATTGCCTCTCAGAGAAGTCTCCTTGAGGTC
EST: gi|254341892|gb|GR853029.1|GR853029
EST:     ATCCATCTGAAGCTGATCGACTAAGACATCTTGCCTCACCTGCTGGAAAG                         GATGAATATTCAGAGTGGGTGATTGCCTCTCAGAGAAGTCTCCTTGAGGTC
genomic: ATCCATCTGAAGCTGATCGACTAAGACATCTTGCCTCACCTGCTGGAAAGgtttaatatt ... gcctttgtagGATGAATATTCAGAGTGGGTGATTGCCTCTCAGAGAAGTCTCCTTGAGGTC
EST: gi|105633448|gb|DW246811.1|DW246811
EST:     ATCCATCTGAAGCTGATCGACTAAGACATCTTGCCTCACCTGCTGGAAAG                         GATGAATATTCAGAGTGGGTGATTGCCTCTCAGAGAAGTCTCCTTGAGGTC
genomic: ATCCATCTGAAGCTGATCGACTAAGACATCTTGCCTCACCTGCTGGAAAGgtttaatatt ... gcctttgtagGATGAATATTCAGAGTGGGTGATTGCCTCTCAGAGAAGTCTCCTTGAGGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taactttttctacttatgtttcttatttgtattctactcttgtctgcctttgtagGATGAATATTCAGAGTGGGTGATTGCCTCTCAGAGAAGTCTCCTTGAGGTCATGGCTGAATTTCCATCAGCCAAACCTCCAATTGGTGTCTTTTTTGCAG
 aagtaac  putative branch site (score: 2)
                                    ctcttgtctgccttt  putative PPT
             ttatgtttcttattt  TA-rich tract