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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacattatttttcactatgtgacttactttgaccatttagttctgtttgattgataatattctttatggtacatggtttacagATTTGATCAATTCCCACTCTCTCCCTTATCGCTAAAAGCCATCAAGGATGCGGGATTTGAGACAATGACTGTTGTGCAGGAGGCTACTCTTCCTATCATT

Basic information

species Arabidopsis thaliana
transcript AT5G08610.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G08610.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA16G02880.1 (Glycine max), 3'ss of exon 1
-------------gtaca-ttatttttcactat--gtgacttactttgaccatttagttctgtttgattgataatattctttatggtacatggt-ttacagATTTGATCAATTCCCACTCTCTCCCTTATCGCTAAAAGCCATCAAGGATGCGGGATTTGAGACAATGACTGTTGTGCAGGAGGCTACTCTTCCTATCATT
              || | ||   | | | |||   ||  ||| | ||     ||  |  ||| | || |||       ||| | | |  || |   |||||||||| ||||   || |||||||  | ||  ||||||   |||||||||| |||| ||||| |||||| |||||||||||||||||||||||  | |||
acgtgactttgacatatacttgaatattattatccatggtttagtatgttatgttgctgttgtattatggatgtctgattttttag-atgtgatgccacagATTTGACCAATGTTCAATCTCTCCACTGTCATTAAAAGGAGTCAAGGATGCTGGATATGAGAAAATGACAGTTGTGCAGGAGGCTACTCTTCCAGTAATT

upper sequence: AT5G08610.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA07G06240.1 (Glycine max), 3'ss of exon 1
gtacattatttttcac-tatgtgacttactttgacca---tttagtt----------ctgtttgattgataatattc--tttatggtacatggt-ttacagATTTGATCAATTCCCACTCTCTCCCTTATCGCTAAAAGCCATCAAGGATGCGGGATTTGAGACAATGACTGTTGTGCAGGAGGCTACTCTTCCTATCATT
 || || | | |  |  ||| ||| |    ||  |||   ||||||           || ||  |||   ||| |    ||| ||  |  || |    ||||||||| ||||   || |||| ||  | ||  ||||||   |||||||||| |||| ||||| |||||| ||||| |||||||||||||||||  | |||
-tatatgactctgaatatatttgaatcgtattatccatgctttagtatgttatgctgctattgtattatgaatgtctgatttttgagatgtgttgccgcagATTTGACCAATGTTCAATCTCCCCACTGTCATTAAAAGGAGTCAAGGATGCTGGATATGAGAAAATGACGGTTGTTCAGGAGGCTACTCTTCCAGTAATT
















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|124793683|gb|EH883362.1|EH883362
EST:     CCAACTGGTGAACATGTCAAAACTTCAGATTCTTACTTGTCTAAGACAAG                         ATTTGATCAATTCCCACTCTC
genomic: CCAACTGGTGAACATGTCAAAACTTCAGATTCTTACTTGTCTAAGACAAGgtacattatt ... tggtttacagATTTGATCAATTCCCACTCTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaccatttagttctgtttgattgataatattctttatggtacatggtttacagATTTGATCAATTCCCACTCTCTCCCTTATCGCTAAAAGCCATCAAGGATGCGGGATTTGAGACAATGACTGTTGTGCAGGAGGCTACTCTTCCTATCATT
                    gattgat  putative branch site (score: 4)
                 tttgattgataatatt  TA-rich tract