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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacccatctctttacggttcacctttactgttactatctcaaaacaacatctgtaacatcatcactgtttgttctttaattctccagGCAATATCTTTCTCAAATCTATATGCACCCGAACATTTGATCATCAATGTCAAAGACGCTGAGAAATGGGAGGGACTGATTGAGAACGCAGGCTCGGTTT

Basic information

species Arabidopsis thaliana
transcript AT5G63890.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G63890.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM2G058584_T01 (Zea mays), 3'ss of exon 13
------------------------------------------------------------gtac-ccatctctttacggttcacctttactgttactatctcaaaacaacatctgt-aacatcatcactgtttgttctttaattctccagGCAATATCTTTCTCAAATCTATATGCACCCGAACATTTGATCATCAATGTCAAAGACGCTGAGAAATGGGAGGGACTGATTGAGAACGCAGGCTCGGTTT
                                                            || | ||| |  | ||| ||  ||||       | | |  |       |||| |   |  | | ||    | ||||  |   || | ||||| ||||| ||||||||||| ||||| || || |||||||||||||| || || || |||||| | |||||||   | || || |||||||         
gtagtttttcactcctgattcctgcaacggatgcatctatgctgcccatttgtgttttaagtgcaccaccattctactgtg-acctcagtgccttccaattatgctggacatttccgaggaacttcgacatctgtttctactttttgcagGCGATATCATTCTCAAATCTGTATGCCCCTGAGCATTTGATCATCAACGTAAAGGATGCTGAGCAGTGGGAGGAGTTCATCGAAAACGCAG---------
















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|116411553|gb|EG454145.1|EG454145
EST:     CAAAAGCACTAAGTCACAGTTTCACAGTGTTTGCTCGAGATATGATTGAG                         GCAATATCTTTCTCAAATCTATATGCACCCGAACATTTGATCATCAATGTC
genomic: CAAAAGCACTAAGTCACAGTTTCACAGTGTTTGCTCGAGATATGATTGAGgtacccatct ... aattctccagGCAATATCTTTCTCAAATCTATATGCACCCGAACATTTGATCATCAATGTC
EST: gi|125260618|gb|EL274703.1|EL274703
EST:     CTAAGTCACAGTTTCACAGTGTTTGCTCGAGATATGATTGAG                         GCAATATCTTTCTCAAATCTATATGCACCCGAACATTTGATCATCAA
genomic: CTAAGTCACAGTTTCACAGTGTTTGCTCGAGATATGATTGAGgtacccatct ... aattctccagGCAATATCTTTCTCAAATCTATATGCACCCGAACATTTGATCATCAA
EST: gi|86080839|gb|DR376596.1|DR376596
EST:     CAAAAGCACTAAGTCACAGTTTCACAGTGTTTGCTCGAGATATGATTGAG                         GCAATATCTTTCTCAAATCTATATGCACCCGAACATTTGATCATCAATGTC
genomic: CAAAAGCACTAAGTCACAGTTTCACAGTGTTTGCTCGAGATATGATTGAGgtacccatct ... aattctccagGCAATATCTTTCTCAAATCTATATGCACCCGAACATTTGATCATCAATGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actatctcaaaacaacatctgtaacatcatcactgtttgttctttaattctccagGCAATATCTTTCTCAAATCTATATGCACCCGAACATTTGATCATCAATGTCAAAGACGCTGAGAAATGGGAGGGACTGATTGAGAACGCAGGCTCGGTTT
                                       ttctttaattctcc  CT-rich tract
                                   tttgttctttaatt  TA-rich tract