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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagactccttaaattctatataaacgagttgtttgatgtcccctgtctcgtaatattctgatacatactgatgtctggcagGAATTATCATCGGATTCTTCTCAACATGTCCGCTCTGCTCTAGCTTCAGTAATAATGGGGATGGCTCCTATCCTTGGGAAG

Basic information

species Arabidopsis thaliana
transcript AT1G25490.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G25490.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA10G42250.1 (Glycine max), 3'ss of exon 6
-----------------------------------------------------gtaagactccttaaattctatataaacgagttgtttgatgtcccctgtctcgtaatattctgatacatactgatg--tctggcagGAATTATCATCGGATTCTTCTCAACATGTCCGCTCTGCTCTAGCTTCAGTAATAATGGGGATGGCTCCTATCCTTGGGAAG
                                                       | |  |   |   || |   |   | | |   |          | | |    |  ||    | | |    |    | | ||||||||| ||||| ||||||||||| |||||||| |||||| | ||||||||||||||||| ||||||||  |  | || |||
gtatacatctttggaaaagaaattataacacattagtattactgattatatacagaggcttttcttggttttggttggtcaattcagtatgctaaatttatatttacaggtttaagttctttgaaacaacttttgcagGAATTGTCATCAGATTCTTCTCAGCATGTCCGGTCTGCTTTGGCTTCAGTAATAATGGGAATGGCTCCAGTGTTGGGAAAG

upper sequence: AT1G25490.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA20G24790.1 (Glycine max), 3'ss of exon 6
-----------------------------------------------------gtaagactccttaaattctatataaacgagttgtttgatgtcccctgtctcgtaatattctgatacatactgatg--tctggcagGAATTATCATCGGATTCTTCTCAACATGTCCGCTCTGCTCTAGCTTCAGTAATAATGGGGATGGCTCCTATCCTTGGGAAG
                                                       | |  | | |   || |   |   | | |   | |        | | |    |  ||    | | |    |    | | ||||||||| ||||| |||||||| || |||||||| |||||| | ||||||||||||||||| ||||||||  |  | || |||
gtatacatctttggaaaagaaattataacacattaatattactgattatatacagaggctttccttggttttggtttgtcaattcagtaggataaatttatatttacaggtttaagttctttgaaacaacttttgcagGAATTGTCATCAGATTCTTCACAGCATGTCCGGTCTGCTTTGGCTTCAGTAATAATGGGAATGGCTCCAGTGTTGGGAAAG
















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|125202643|gb|EL217597.1|EL217597
EST:     AGCTTGCGATTCAGCACATCCTTCCTTGTGTGAAG                         GAATTATCATCGGATTCTTCTCAACATGTCCGCTCTGCTCTAGCTTCAGT
genomic: AGCTTGCGATTCAGCACATCCTTCCTTGTGTGAAGgtaagactcc ... tgtctggcagGAATTATCATCGGATTCTTCTCAACATGTCCGCTCTGCTCTAGCTTCAGT
EST: gi|86067631|gb|DR363388.1|DR363388
EST:     GGCTTTTGAATCCAGAGCTTGCGATTCAGCACATCCTTCCTTGTGTGAAG                         GAATTATCATCGGATTCTTCTCAACATGTCCGCTCTGCTCTAGCTTCAGTA
genomic: GGCTTTTGAATCCAGAGCTTGCGATTCAGCACATCCTTCCTTGTGTGAAGgtaagactcc ... tgtctggcagGAATTATCATCGGATTCTTCTCAACATGTCCGCTCTGCTCTAGCTTCAGTA
EST: gi|47830292|gb|CK119976.1|CK119976
EST:     GGCTTTTGAATCCAGAGCTTGCGATTCAGCACATCCTTCCTTGTGTGAAG                         GAATTATCATCGGATTCTTCTCAACATGTCCGCTCTGCTCTAGCTTCAGTA
genomic: GGCTTTTGAATCCAGAGCTTGCGATTCAGCACATCCTTCCTTGTGTGAAGgtaagactcc ... tgtctggcagGAATTATCATCGGATTCTTCTCAACATGTCCGCTCTGCTCTAGCTTCAGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttgtttgatgtcccctgtctcgtaatattctgatacatactgatgtctggcagGAATTATCATCGGATTCTTCTCAACATGTCCGCTCTGCTCTAGCTTCAGTAATAATGGGGATGGCTCCTATCCTTGGGAAG
                                       tactgat  putative branch site (score: 2)
                        taatattct  TA-rich tract