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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttaatattttattattttatatcaagggaattttaagtaactttttctacttatttttctcattcgtatgctactcttgtgtgcctttgtagGATGAATATTCAGAATGGGTGATTACCTCTCAGAGAAGTCTCCTTGAGGTCATGGCTGAATTTCCATCAGCCAAACCTCCAATTGGTGTCTTTTTTGCAG

Basic information

species Glycine max
transcript GLYMA13G00990.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G00990.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv11s0052g00880.t01 (Vitis vinifera), 3'ss of exon 11
gtttaatattttattattttatatcaagggaattttaagtaactttttc---tacttatttttctcattcgtatgctactcttgtgtgc---ctttgtagGATGAATATTCAGAATGGGTGATTACCTCTCAGAGAAGTCTCCTTGAGGTCATGGCTGAATTTCCATCAGCCAAACCTCCAATTGGTGTCTTTTTTGCAG
                           || | ||| | | |  | |||    |    | |  |  | ||  |||||  ||| || |       |||  ||||||||||| || |||||||  || |   ||||||||||||||||||| | ||||||||||| ||||||||||| |||||| |||| || || |||||||
-----------------------gttgggaattttcatgcagatctttgatatgaaaactggttcccttgttatgcctctcatgagaatatgttttacagGATGAATATGCACAATGGGTAGTTGCAAGTCAGAGAAGTCTCCTTGAGATAATGGCTGAATTCCCATCAGCCAAGCCTCCACTTGGAGTTTTCTTTGCAG
















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|13312892|gb|BG406543.1|BG406543
EST:     ATCCATCTGAAGCTGATCGACTAAGACATCTTGCCTCACCTGCTGGAAAG                         GATGAATATTCAGAATGGGTGATTACCTCTCAGAGAAGTCTCCTTGAGGTC
genomic: ATCCATCTGAAGCTGATCGACTAAGACATCTTGCCTCACCTGCTGGAAAGgtttaatatt ... gcctttgtagGATGAATATTCAGAATGGGTGATTACCTCTCAGAGAAGTCTCCTTGAGGTC
EST: gi|105637293|gb|DY577108.1|DY577108
EST:     ATCCATCTGAAGCTGATCGACTAAGACATCTTGCCTCACCTGCTGGAAAG                         GATGAATATTCAGAATGGGTGATTACCTCTCAGAGAAGTCTCCTTGAGGTC
genomic: ATCCATCTGAAGCTGATCGACTAAGACATCTTGCCTCACCTGCTGGAAAGgtttaatatt ... gcctttgtagGATGAATATTCAGAATGGGTGATTACCTCTCAGAGAAGTCTCCTTGAGGTC
EST: gi|7691075|gb|AW759209.1|AW759209
EST:     ATCCATCTGAAGCTGATCGACTAAGACATCTTGCCTCACCTGCTGGAAAG                         GATGAATATTCAGAATGGGTGATTACCTCTCAGAGAAGTCTCCTTGAGGTC
genomic: ATCCATCTGAAGCTGATCGACTAAGACATCTTGCCTCACCTGCTGGAAAGgtttaatatt ... gcctttgtagGATGAATATTCAGAATGGGTGATTACCTCTCAGAGAAGTCTCCTTGAGGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taactttttctacttatttttctcattcgtatgctactcttgtgtgcctttgtagGATGAATATTCAGAATGGGTGATTACCTCTCAGAGAAGTCTCCTTGAGGTCATGGCTGAATTTCCATCAGCCAAACCTCCAATTGGTGTCTTTTTTGCAG
 aagtaac  putative branch site (score: 2)
                                            tgccttt  putative PPT
     ttttctacttattttt  TA-rich tract