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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatctgataaaatatgcattggtatgcaaaatgctgtaatttcttctctcgtggtgagtcatgtcatttggcttgttgaccccctttcagACTCATCTTGAGACATCTATTACAAGACACAAGGATCACATAATAAAGTTGGAACTGATCTTGAGGCTTCTGGACAATGATGAATTAAGTCCAGAACAAG

Basic information

species Arabidopsis thaliana
transcript AT5G18230.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G18230.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv08s0007g07570.t01 (Vitis vinifera), 3'ss of exon 5
gtaaaatctgataaaatatgcattggtatgcaaaatgctgtaatttcttctctcgtggtgagtcatgtcatttggcttgttgaccccctttcagACTCATCTTGAGACATCTATTACAAGACACAAGGATCACATAATAAAGTTGGAACTGATCTTGAGGCTTCTGGACAATGATGAATTAAGTCCAGAACAAG
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gtaggac--agaaaaaaaggcacta-tatggaaagatagctaatatttttgttggtggttgatgg----atttcacttgtt-------ctgcagACACATTTGGAGACATCTATTGCTAGACACAAGGCTCATATAATGAAGTTAGAACTGATTTTGAGGCTACTGGATAATGATGAATTGAGTCCTGAGCAGG
















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|116424325|gb|EG466917.1|EG466917
EST:     AGTTGGAAGGACTGTCTGTCAAAAAAGGAAAGACAAGACCGCCCAGATTG                         ACTCATCTTGAGACATCTATTACAAGACACAAGGATCACATAATAAAGTTG
genomic: AGTTGGAAGGACTGTCTGTCAAAAAAGGAAAGACAAGACCGCCCAGATTGgtaaaatctg ... cccctttcagACTCATCTTGAGACATCTATTACAAGACACAAGGATCACATAATAAAGTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaatttcttctctcgtggtgagtcatgtcatttggcttgttgaccccctttcagACTCATCTTGAGACATCTATTACAAGACACAAGGATCACATAATAAAGTTGGAACTGATCTTGAGGCTTCTGGACAATGATGAATTAAGTCCAGAACAAG
                                      tgttgac  putative branch site (score: 3)
                                            ccccctttc  CT-rich tract