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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTATGGTTCTCCTCCCATCTAACATAACTGTTTTCACCCTTGACTTCTCGGGGTCAGGCTTATCTGAGGGTGATTATGTAAGCCTTGGCTGGCATGAGgtgtgttttcgggtcttactttctcaaggttcttcgtcttttccttatctaaattttttcttcttaaacttaagctag

Basic information

species Arabidopsis thaliana
transcript AT4G17150.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G17150.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os02g10440.1 (Oryza sativa), 5'ss of exon 4
AGTTATGGTTCTCCTCCCATCTAACATAACTGTTTTCACCCTTGACTTCTCGGGGTCAGGCTTATCTGAGGGTGATTATGTAAGCCTTGGCTGGCATGAGgtgtgttttcgggtcttactttctcaaggttcttcgtcttttccttatctaaattttttcttcttaaacttaagctag
 | | |  | || || ||  | || || |||||||| || ||||| || || ||||||||  |||| |  || ||||||||||||||||| ||||||||||| | |  || | | | |||||       |||| | | | |  | |   ||| |   || |||| ||| ||   ||||
TGCTGTTATACTGCTTCCTGCAAATATCACTGTTTTTACACTTGATTTTTCCGGGTCAGGTCTATCAGGTGGAGATTATGTAAGCCTTGGTTGGCATGAGgtatataatcag-tatcacttttgttc--ttctacatttatatcatggataattacattattctgaaatttt--ctag

upper sequence: AT4G17150.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA17G00770.1 (Glycine max), 5'ss of exon 5
AGTTATGGTTCTCCTCCCATCTAACATAACTGTTTTCACCCTTGACTTCTCGGGGTCAGGCTTATCTGAGGGTGATTATGTAAGCCTTGGCTGGCATGAGgtgtgttttcgggtcttac---tttctcaaggttcttcgtcttttccttatc----taaattttttcttcttaaacttaagctag-----------------------------------
 | | |  |||| || || || || || |||||||| |||||||||||||||||||||||||||||||| || || ||||| || ||||| |||||||| ||  ||| ||   |  | |   ||| |    |||  |    || |   |||     | | ||| | | | ||  |  |   ||                                     
TGCTGTAATTCTTCTTCCTTCAAATATTACTGTTTTTACCCTTGACTTCTCGGGGTCAGGCTTATCTGATGGAGACTATGTTAGTCTTGGTTGGCATGAAgtaagttatctcattatgcatgtttttatttgtttattaatttctggctattatgttgagtttctgcatattccatcttttctgaaactaccaaaacgtgtccattcctttgtgtggtag

upper sequence: AT4G17150.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA07G40050.1 (Glycine max), 5'ss of exon 5
AGTTATGGTTCTCCTCCCATCTAACATAACTGTTTTCACCCTTGACTTCTCGGGGTCAGGCTTATCTGAGGGTGATTATGTAAGCCTTGGCTGGCATGAGgtgtgttttcgggtcttactttctcaaggttcttcgtcttttccttatc--taaattttttcttcttaaacttaagctag----------------------------------------
 | | |  |||| || || || || || |||||||| |||||||||||||||||||||||||||||||| || || ||||| || ||||| |||||||| ||  ||| ||   |  | | |  |      | ||  |   || ||      ||| ||   | |    | | |  | ||                                          
TGCTGTAATTCTTCTTCCTTCAAATATTACTGTTTTTACCCTTGACTTCTCGGGGTCAGGCTTATCTGATGGAGACTATGTTAGTCTTGGTTGGCATGAAgtaagttatctctttatgcatgtttttatctgtttattaatttctggctattaagttgagtttctgcatattccatcttttcggaaactaccaatacgtgtccattcctttgtgtggtag

upper sequence: AT4G17150.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G12950.1 (Glycine max), 5'ss of exon 3
AGTTATGGTTCTCCTCCCATCTAACATAACTGTTTTCACCCTTGACTTCTCGGGGTCAGGCTTATCTGAGGGTGATTATGTAAGCCTTGGCTGGCATGAGgtgtgttttcgggtcttactttctcaaggttcttcgtct--tttccttatctaaattttttcttc-ttaaacttaagctag-----------------------------------------------------------------------------------------------
 ||| |  |||| || ||||| || || |||||||| || ||||||||||| ||||||||||| ||||| || ||  |||| |||||||| |||||||| ||  |||  |   | || | |        |||||    |  |||||  |  || || || | | | |  |||  ||| |                                                                                                 
TGTTGTTATTCTTCTTCCATCAAATATTACTGTTTTTACTCTTGACTTCTCAGGGTCAGGCTTGTCTGATGGAGACCATGTTAGCCTTGGTTGGCATGAAgtaagttacctctttttgcatgtatttatttctttaattagtttccaaaattacatcttatatgcatctaacgaaagtttctttatgaattaacaatgcaacacatctataaagttgtttgcttttttgtgtaattttcctgcaatggttatcaagtttaatgtttcctgtgacag

upper sequence: AT4G17150.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G02050.1 (Glycine max), 5'ss of exon 5
AGTTATGGTTCTCCTCCCATCTAACATAACTGTTTTCACCCTTGACTTCTCGGGGTCAGGCTTATCTGAGGGTGATTATGTAAGCCTTGGCTGGCATGAGgtgtgttttcgggtcttactttctcaaggttcttcgtct--tttccttatctaaattttttcttc-ttaaacttaagctag------------------------------------------------------------------------------------------------
 | | |  |||| || ||||| || || ||||| || || |||||||| |||||||||||||| ||||| || ||  |||| |||||||| |||||||| ||  | |  |   | || | |        |||||       |||||  |  |  || |||| | | |  |||| ||| |                                                                                                  
TGCTGTTATTCTTCTTCCATCAAATATTACTGTCTTTACTCTTGACTTTTCGGGGTCAGGCTTGTCTGATGGAGACCATGTTAGCCTTGGTTGGCATGAAgtaagctacccctttttgcatgtatttatttctttaatcagtttccacaattgcatcttttatgcatctaactaaagtttctgtatgaaattaacgatgcagcacatctataaagttgcatgcttttttgtgtaattttcctgcaatgtttctcaagtttaatgtttcctgtgacag

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|19878908|gb|AU239739.1|AU239739
EST:     CGGGGTCAGGCTTATCTGAGGGTGATTATGTAAGCCTTGGCTGGCATGAG                         AAGGATGATCTCAAGACTGTGGTATCTTACCTGAGAAACAGCAATCAAGTA
genomic: CGGGGTCAGGCTTATCTGAGGGTGATTATGTAAGCCTTGGCTGGCATGAGgtgtgttttc ... cttaagctagAAGGATGATCTCAAGACTGTGGTATCTTACCTGAGAAACAGCAATCAAGTA