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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgaagatttacttcttcaaaacatttttgcgatcgaatcttgtttctttgatttgttttgggctgatcatatatgttttttatcagTAACAGAAAAGATAAGAGCTCATTTTGGAATCTTCTTCACATCTCACCAGTTCGTAATGCTTCAGGCAAG

Basic information

species Arabidopsis thaliana
transcript AT2G02710.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G02710.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA02G02600.6 (Glycine max), 3'ss of exon 5
-------------gttgaagatttacttcttcaaaacatttttgcgatcgaatcttgtttctttgatttgttt--tgggctgatcatatatgttttttatcagTAACAGAAAAGATAAGAGCTCATTTTGGAATCTTCTTCACATCTCACCAGTTCGTAATGCTTCAGGCAAG
              ||  || || |    |        | | |||   | || |  ||    || |||| ||   |  |||||  ||   | || |  | || |||||| || || || ||||||||||||||| ||||||| |||||||| |||||| ||||||| ||||||
gtacgtattttgaattacaggttaatacttcacttttgtgtctgctgcctaagcc-gtgaagtttatttattgaatatgctga--attagttttctgcaacactaacagGAAGGACAAAAGCTCATTTTGGAATTTTCTTCATATCTCACCCGTTCGTGATGCTTCTGGCAAG

upper sequence: AT2G02710.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA02G02600.5 (Glycine max), 3'ss of exon 5
gttgaagatttacttcttcaaaacatttttgcgatcgaatcttgtttctttgatttgttt--tgggctgatcatatatgttttttatcagTAACAGAAAAGATAAGAGCTCATTTTGGAATCTTCTTCACATCTCACCAGTTCGTAATGCTTCAGGCAAG
                         | | |||   | || |  ||    || |||| ||   |  |||||  ||   | || |  | || |||||| || || || ||||||||||||||| ||||||| |||||||| |||||| ||||||| ||||||
------------------------gtgtctgctgcctaagcc-gtgaagtttatttattgaatatgctga--attagttttctgcaacactaacaggaagGACAAAAGCTCATTTTGGAATTTTCTTCATATCTCACCCGTTCGTGATGCTTCTGGCAAG

upper sequence: AT2G02710.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA02G02600.1 (Glycine max), 3'ss of exon 5
gttgaagatttacttcttcaaaacatttttgcgatcgaatcttgtttctttgatttgtt--ttgggctgatcatatatgttttttatcagTAACAGAAAAGATAAGAGCTCATTTTGGAATCTTCTTCACATCTCACCAGTTCGTAATGCTTCAGGCAAG
||| |   || |||| |        | | |||   | || |  ||    || |||| ||   |  |||||  ||   | || |  | || |||||| || || || ||||||||||||||| ||||||| |||||||| |||||| ||||||| ||||||
gttaatacttcactttt-------gtgtctgctgcctaagcc-gtgaagtttatttattgaatatgctga--attagttttctgcaacactaacagGAAGGACAAAAGCTCATTTTGGAATTTTCTTCATATCTCACCCGTTCGTGATGCTTCTGGCAAG

upper sequence: AT2G02710.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA01G04920.1 (Glycine max), 3'ss of exon 5
gttgaagatttacttcttcaaaacatttttgcgatcgaatcttgtttctttgatttgtt--ttgggctgatcatatatgttttttatcagTAACAGAAAAGATAAGAGCTCATTTTGGAATCTTCTTCACATCTCACCAGTTCGTAATGCTTCAGGCAAG
||| |   || |||| |        ||| |||   | || || ||    ||||||| ||   |  |||||  ||   | || |  | || |||||| || || || ||||||||||||||| ||||||| |||||||| |||||| ||||||| ||||||
gttaatacttcactttt-------gtttctgctgcctaagct-gtgaagttgatttattgaatatgctga--attagttttctgcaacactaacagGAAGGACAAAAGCTCATTTTGGAATTTTCTTCATATCTCACCCGTTCGTGATGCTTCTGGCAAG

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|116470457|gb|EG513049.1|EG513049
EST:     GAATGCATCTTAAAGGGACAATCATGCACAGTGCAAATACTAAATTACAG                         TAACAGAAAAGATAAGAGCTCATTTTGGAANNNNNNNCACATCTCACCAGT
genomic: GAATGCATCTTAAAGGGACAATCATGCACAGTGCAAATACTAAATTACAGgttgaagatt ... tttttatcagTAACAGAAAAGATAAGAGCTCATTTTGGAATCTTCTTCACATCTCACCAGT
EST: gi|116453954|gb|EG496546.1|EG496546
EST:     GAATGCATCTTAAAGGGACAATCATGCACAGTGCAAATACTAAATTACAG                         TAACAGAAAAGATAAGAGCTCATTTTGGAATCTTCTTCACATCTCACCAGT
genomic: GAATGCATCTTAAAGGGACAATCATGCACAGTGCAAATACTAAATTACAGgttgaagatt ... tttttatcagTAACAGAAAAGATAAGAGCTCATTTTGGAATCTTCTTCACATCTCACCAGT
EST: gi|125018209|gb|EL090478.1|EL090478
EST:     CACAGTGCAAATACTAAATTACAG                         TAACAGAAAAGATAAGAGCTCATTTTGGAATCTTCTTCACATCTCACCAGT
genomic: CACAGTGCAAATACTAAATTACAGgttgaagatt ... tttttatcagTAACAGAAAAGATAAGAGCTCATTTTGGAATCTTCTTCACATCTCACCAGT
EST: gi|164082955|gb|ES144858.1|ES144858
EST:     GGACAATCATGCACAGTGCAAATTACTAAATTACAG                         TAACAGAAAAGATAAGAGCTCATTTTGGAATCTTCTTCACATCTCACCAGT
genomic: GGACAATCATGCACAGTGCAAA-TACTAAATTACAGgttgaagatt ... tttttatcagTAACAGAAAAGATAAGAGCTCATTTTGGAATCTTCTTCACATCTCACCAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcgaatcttgtttctttgatttgttttgggctgatcatatatgttttttatcagTAACAGAAAAGATAAGAGCTCATTTTGGAATCTTCTTCACATCTCACCAGTTCGTAATGCTTCAGGCAAG
                             ggctgat  putative branch site (score: 4)
                                            ttttttatc  putative PPT
                                  atcatatatgtttttt  TA-rich tract