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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactctaaatccctaaaaccataaaccctcaaagcatcatcagagtctcattactcgtttttttgcagATTGTTCACTTCAAAGGATCAAGAAAACGTTTAATGCTCGAGGCATGGAACTTCTACAAATCTACTTCAAACATTCCAGATATGTTGTGTCTTGTTCTAG

Basic information

species Arabidopsis thaliana
transcript AT2G45320.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G45320.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G143688_T01 (Zea mays), 3'ss of exon 5
---------------------------------gtactctaaatccctaaaaccataaaccctcaaagcatcatcagagtctcattactcgtttttttgcagATTGTTCACTTCAAAGGATCAAGAAAACGTTTAATGCTCGAGGCATGGAACTTCTACAAATCTACTTCAAACATTCCAGATATGTTGTGTCTTGTTCTAG
                                 |||   |   |   ||        |          |||||  |     || |    | ||||||  ||| |||| || |||||||| |||||||| || || ||||| ||||||||||| |||||||| || || || || ||  | |||||| | || ||  |  |  
ggactatacttattcaataaatgtgcatgatgtgtaacattgttgtatatgttttctatttactgtgacatcaagaataattcttgtaccatttttt--cagGTTGTCCATTTCAAAGGTTCAAGAAAGCGATTGATGCTTGAGGCATGGAATTTCTACAACTCAACCTCTAAGATGTCTGATATGCTATGCCTAATCTTGA

upper sequence: AT2G45320.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G038667_T02 (Zea mays), 3'ss of exon 8
----------------------------gtactctaaatccctaaaaccataaaccctcaaagcatcatcagagtctcattactcgtttt----tttgcagATTGTTCACTTCAAAGGATCAAGAAAACGTTTAATGCTCGAGGCATGGAACTTCTACAAATCTACTTCAAACATTCCAGATATGTTGTGTCTTGTTCTAG
                             |  | |  | |  |      |||  |  || |   |   | | |  |  | || |  || |    ||| ||| ||||||| |||||||| || ||||| || || ||||| ||||||||||| |||||||  || || || ||  |  | |||||| | || ||  |  |  
atggatcatactaattcaataaatgtgcatgttgtgtaacattgttgt-atatgctttctatttactgtgacatccagagtaattcttgtaccattttcagGTTGTTCATTTCAAAGGTTCCAGAAAGCGATTGATGCTTGAGGCATGGAATTTCTACAGCTCAACCTCTAAGCTGTCTGATATGCTATGCCTAATCTTGA

upper sequence: AT2G45320.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA06G42210.1 (Glycine max), 3'ss of exon 4
---------------------------gtactctaaatccctaaaaccataa----accctcaaagcatcatcagagtctcattactcgtttttttgcagATTGTTCACTTCAAAGGATCAAGAAAACGTTTAATGCTCGAGGCATGGAACTTCTACAAATCTACTTCAAACATTCCAGATATGTTGTGTCTTGTTCTAG
                            |  | ||||      | || ||      |   | ||     |||  |   ||  ||  |  ||    ||||| ||||||| || |||||||||||||||||| ||||||||||  | |||||||| ||    ||  ||    |  || |||| ||||| |||||  || | |
taaatgcttgaagttagaatttgggaaatcttttaaagatgatatactatcgttttagttttaacatgccatttgttcctggtttatttttgggatgcagGTTGTTCATTTTAAAGGATCAAGAAAACGTCTAATGCTCGAATCTTGGAACTTTTATTCCTCATCTCTTGAGGTTTCAGACATGTTATGTCTCATTTTGG

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|164004728|gb|EL971840.1|EL971840
EST:     CAGTTTCATGGCATGCCATTAGATGTCAAG                         ATTGTTCACTT
genomic: CAGTTTCATGGCATGCCATTAGATGTCAAGgtactctaaa ... ttttttgcagATTGTTCACTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaaccataaaccctcaaagcatcatcagagtctcattactcgtttttttgcagATTGTTCACTTCAAAGGATCAAGAAAACGTTTAATGCTCGAGGCATGGAACTTCTACAAATCTACTTCAAACATTCCAGATATGTTGTGTCTTGTTCTAG
 ccctaaa  putative branch site (score: 3)
                                     ttactcgttttttt  putative PPT
                                            ttttttt  TA-rich tract