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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttctccaaactttctgcataatttatcaagggtaaatcttcttcaagttgacttcttttctgtgtcctcatgaatgatagttttaccctgcagAACTTTTCCAGAGATTATTCAGACAGGACTTGTTGGTCGCTAGCCTTTTCCGGAATTTCTTACTTGCTGAGAGAATAATGCGGTCCGCAAACTGTAATCC

Basic information

species Arabidopsis thaliana
transcript AT3G08850.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G08850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os11g01872.1 (Oryza sativa), 3'ss of exon 6
gtacttctccaaactttctgcataatttat--caagggtaaatcttcttcaagttgacttcttttctgtgtcctcatgaatgatagttttaccctgcagAACTTTTCCAGAGATTATTCAGACAGGACTTGTTGGTCGCTAGCCTTTTCCGGAATTTCTTACTTGCTGAGAGAATAATGCGGTCCGCAAACTGTAATCC
|||||  |    | |||   || |||| ||  ||  | | |||    |||   || | ||  |||   | |  | |||| | | | ||| ||   ||||| || ||||| ||| | ||||| |||||  | ||||| ||||| || || || || |||||||||||||||||||| |||||||||||||| |||   ||
gtactgatagtcattttaatcacaattaatgccagtgatcaattgctttctcattcattttcttttaatctgtt-atgattca-actttcactacgcagATCTATTCCAAAGACTTTTCAGGCAGGATCTTTTGGTTGCTAGTCTCTTTCGCAACTTCTTACTTGCTGAGAGAATCATGCGGTCCGCAAATTGTTCCCC

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os12g01922.1 (Oryza sativa), 3'ss of exon 7
gtacttctccaaactttctgcataatttat--caagggtaaatcttcttcaagttgacttcttttctgtgtcctcatgaatgatagttttaccctgcagAACTTTTCCAGAGATTATTCAGACAGGACTTGTTGGTCGCTAGCCTTTTCCGGAATTTCTTACTTGCTGAGAGAATAATGCGGTCCGCAAACTGTAATCC
|||||  |      |||    | |||| ||  ||  | | |||    |||   || | ||  |||   | |  | |||| | | | ||| ||   ||||| || ||||| ||| | ||||| |||||  | ||||| ||||| || || || || |||||||||||||||||||| |||||||||||||| |||   ||
gtactgatagtcgttttagttacaattaatgccagtgatcaattgctttctcattcattttcttttaatctgtt-atgattca-actttcactgcgcagATCTATTCCAAAGACTTTTCAGGCAGGATCTTTTGGTTGCTAGTCTCTTTCGCAACTTCTTACTTGCTGAGAGAATCATGCGGTCCGCAAATTGTTCCCC

upper sequence: AT3G08850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv08s0058g00890.t01 (Vitis vinifera), 3'ss of exon 7
--------gtacttctccaaactttctgca---taatttatcaagggt-aaatcttc--ttcaagttgacttcttttctgtgtcctcatgaatgatagttttaccctgcagAACTTTTCCAGAGATTATTCAGACAGGACTTGTTGGTCGCTAGCCTTTTCCGGAATTTCTTACTTGCTGAGAGAATAATGCGGTCCGCAAACTGTAATCC
         |     | |  | ||| ||||   | |   ||||   || |||| ||   ||    || | |    ||  |       ||| ||  |  ||||   ||||||| ||||| |||||||| ||||| || ||| |||| || || || || || || ||||||||||||||||||||||| ||||| || |||||||||   ||
gtaatttaattggcttactgattttatgcagcatgagcaatcagctgttaaatttttaatttgtttttattctccttacggtggtatatgcatatttattttgtgctgcagATCTTTTTCAGAGATTGTTCAGGCAAGACCTGTTAGTTGCCAGTCTGTTTCGAAATTTCTTACTTGCTGAGAGAATTATGCGATCTGCAAACTGTTCCCC

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|116411083|gb|EG453675.1|EG453675
EST:     GATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATG                         AACTTTTCCAGAGATTATTCAGACAGGACTTGTTGGTCGCTAGCCTTTTCC
genomic: GATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATGgtacttctcc ... taccctgcagAACTTTTCCAGAGATTATTCAGACAGGACTTGTTGGTCGCTAGCCTTTTCC
EST: gi|116411080|gb|EG453672.1|EG453672
EST:     GATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATG                         AACTTTTCCAGAGATTATTCAGACAGGACTTGTTGGTCGCTAGCCTTTTCC
genomic: GATTTTCACAGCAGTGACGGATACAATTGCTTGGAATGTGCTTCCTCATGgtacttctcc ... taccctgcagAACTTTTCCAGAGATTATTCAGACAGGACTTGTTGGTCGCTAGCCTTTTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttcaagttgacttcttttctgtgtcctcatgaatgatagttttaccctgcagAACTTTTCCAGAGATTATTCAGACAGGACTTGTTGGTCGCTAGCCTTTTCCGGAATTTCTTACTTGCTGAGAGAATAATGCGGTCCGCAAACTGTAATCC
       agttgac  putative branch site (score: 4)
                                          ttttaccct  putative PPT
                                      atagtttta  TA-rich tract