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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttatatatcatgcatcctcatttgacacatgaatcttgatctttttttttatgtaattgattggtgttgtcctgacttgtgcagTTCTATAACCCTGGTAACACGATAATGTTTGATGACCTAAGGAGGAATTTCGTAATGAATCCTCAAAACGGTCTAACAATCAAGCCGTTTAGGAAAGCTC

Basic information

species Arabidopsis thaliana
transcript AT4G06599.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G06599.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G114172_T03 (Zea mays), 3'ss of exon 4
---------gtatttatatatcatgcatcctcatttgacacatgaatcttgatctttttttttatgtaattgattggtgttg--tcctgactt------gtgcagTTCTATAACCCTGGTAACACGATAATGTTTGATGACCTAAGGAGGAATTTCGTAATGAATCCTCAAAACGGTCTAACAATCAAGCCGTTTAGGAAAGCTC
          ||||| | |     | ||   || || | |  || | ||   | |   | || || |||||  |||  | |   ||||| |||       |||||| ||| |||      ||||| |||||||||||||| ||||| ||||||||||| |||||||| || ||||||||    |||||||| || |||||||| |
gttagtactctatttctgtgct-cgtattaccaattta-atgtggacctgtgt-taggtcttcatctaattccttgccgcttgctcctgtcttctccatatgcagTACTACAACGAAAAGAACACCATAATGTTTGATGATCTAAGAAGGAATTTCGTCATGAATCCACAGAACGGTCTCGTGATCAAGCCATTCAGGAAAGCGC

upper sequence: AT4G06599.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G427526_T01 (Zea mays), 3'ss of exon 1
---------gtatttatatat---catgcatcctcatttgacacatgaatcttgatctttttttttatgtaattgattggtgttg--tcctgactt------gtgca-------gTTCTATAACCCTGGTAACACGATAATGTTTGATGACCTAAGGAGGAATTTCGTAATGAATCCTCAAAACGGTCTAACAATCAAGCCGTTTAGGAAAGCTC------------------------------------------------------------------
          ||||||| | |   | ||  |   || || | |  |||| || | | |   |  | || |||||  |||  | |   ||||| |||       ||||       || ||| |||      ||||| || ||||||||||| ||||| ||||||||||| |||||||| || ||||||||    |||||||| || |||||    |                                                                  
gttagtattctatttatttctgtgcttgtgttaccaattta-atgtgaaactgggt-taggtcctcatctaattctttgccgcttgctcctgtcttccccatatgcagtagcctgtactacaacgaaaagaacaccatcatgtttgatgatctaagaaggaatttcgtcatgaatccacagAACGGTCTCGTGATCAAGCCATTCAGGAAGAGGCATAATGATCATGAGCTGGTGAAGCTTGCACACTACCTGCTTTCAATCGGAGACCTAGAAGATCTGA
















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|86077946|gb|DR373703.1|DR373703
EST:     GGATTTTTGATTGCAAACCGCTAGGCTTAATTTGGGCACTACTTCCTGAG                         TTCTATAACCCTGGTAACACGATAATGTTTGATGACCTAAGGAGGAATTTC
genomic: GGATTTTTGATTGCAAACCGCTAGGCTTAATTTGGGCACTACTTCCTGAGgtatttatat ... acttgtgcagTTCTATAACCCTGGTAACACGATAATGTTTGATGACCTAAGGAGGAATTTC
EST: gi|116467856|gb|EG510448.1|EG510448
EST:     GGATTTTTGATTGCAAACCGCTAGGCTTAATTTGGGCACTACTTCCTGAG                         TTCTATAACCCTGGTAACACGATAATGTTTGATGACCTAAGGAGGAATTTC
genomic: GGATTTTTGATTGCAAACCGCTAGGCTTAATTTGGGCACTACTTCCTGAGgtatttatat ... acttgtgcagTTCTATAACCCTGGTAACACGATAATGTTTGATGACCTAAGGAGGAATTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaatcttgatctttttttttatgtaattgattggtgttgtcctgacttgtgcagTTCTATAACCCTGGTAACACGATAATGTTTGATGACCTAAGGAGGAATTTCGTAATGAATCCTCAAAACGGTCTAACAATCAAGCCGTTTAGGAAAGCTC
                                        tcctgac  putative branch site (score: 2)
      ttgatcttttttttta  TA-rich tract