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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgataattttatcaatgaatctcattgttttatttgtttttgttggtatctttcgtttaaaacagttctcatcaatttggtattttgtgtctatagTATGCTCATCGTAAGTGTGTTCAACGTTGGTGTAATGAGAAAGGCGACACAACCTGTGAAATATGCCACAAG

Basic information

species Arabidopsis thaliana
transcript AT5G62460.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G62460.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G118957_T04 (Zea mays), 3'ss of exon 3
gtgataattttatcaatgaatctcattgttttatttgtttttgttggtatctttcgtttaaaacagttc-tcatcaatttggtat----tttgtgtctatagTATGCTCATCGTAAGTGTGTTCAACGTTGGTGTAATGAGAAAGGCGACACAACCTGTGAAATATGCCACAAG
  |   |  |  | |   ||  |  |  |||    |  | |    |  |    | |  |||| | |||    |    |||  ||     ||||| |  | ||||||||||  |  | ||||| ||||||||||| ||||||||||| || | || ||||||||| |||||  ||
--gtctaactgcttacctaagtttgtcttttgccatcctgtacgagccaagcattgcataaatctgtttgctaatttttttataccacatttgtttgcacagTATGCTCACAGGGAATGTGTGCAACGTTGGTGCAATGAGAAAGGAGATATAATCTGTGAAATCTGCCATGAG

upper sequence: AT5G62460.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G156734_T01 (Zea mays), 3'ss of exon 1
gtgataattttatcaatgaatctcattgttttatttgtttttgttggtatctttcgtttaaaacagttctcatcaatttggtattttgtgtct------atagTATGCTCATCGTAAGTGTGTTCAACGTTGGTGTAATGAGAAAGGCGACACAACCTGTGAAATATGCCACAAG
  |   |       |   ||  |  |  |||    |  | |   ||  | |  | |  |||| | |||  | | | |||| |||  |   |||      | ||||||||||  |  | ||||| ||||| ||||| ||||||||||| || |||| ||||||||| |||||  ||
--gtctaaccgcctacctaagtttgtcttttaccatcctgtatgtgcaaaccattgcataaatctgtttgc-taattttgttatactacatctgttcgcacagTATGCTCACAGAGAATGTGTGCAACGATGGTGCAATGAGAAAGGGGATACAATCTGTGAAATCTGCCATGAG
















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|47829320|gb|CK119004.1|CK119004
EST:     ATTCCGTTAAGAACCTCGAGTCCCCTTGTTCTTGTAGTGGCAGTTTGAAG                         TATGCTCATCGTAAGTGTGTTCAACGTTGGTGTAATGAGAAAGGCGACACA
genomic: ATTCCGTTAAGAACCTCGAGTCCCCTTGTTCTTGTAGTGGCAGTTTGAAGgtgataattt ... gtgtctatagTATGCTCATCGTAAGTGTGTTCAACGTTGGTGTAATGAGAAAGGCGACACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttggtatctttcgtttaaaacagttctcatcaatttggtattttgtgtctatagTATGCTCATCGTAAGTGTGTTCAACGTTGGTGTAATGAGAAAGGCGACACAACCTGTGAAATATGCCACAAG
              tttaaaaca  TA-rich tract