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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagatttcattgtttatctctctgtattcgaagattcggagcccgtctttgttcgtcagaatctagaaatgctgtgttgtgctgtgtttagacttggtttttcctaatctgtgtatgtggtgatgcagGAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTG

Basic information

species Arabidopsis thaliana
transcript AT2G30410.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G30410.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA13G35770.1 (Glycine max), 3'ss of exon 2
gtacagatt-----tcattgtttatctctctgt-attcgaagattcggagcccgtctttgttcgtcagaatctagaaatgctgtgttgtgctgtgtttagacttggtttttcctaatctgtgtatgtggtgatgcagGAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTG
||| |  ||     ||    |||   |    || ||| |     ||||     || ||  ||        |||   ||       || |||  | || |   |   ||||    |     | |   |  |||  ||||||||||||||||  |||||||||||||||||||| || |||| ||| || || ||| | || ||||| ||| | ||    |  |||
gtatatcttctccctctgcatttgctttcaggtgatttgccacatcgggttatgtgtt-atttacttttctctgttaaaaaaaaattatgcaat-ttgatggtaaattttgttgagctgatttgcattttga--cagGAAAATGTGTTGGCAGAGTCTAGGATGATGATTCCTGACTGCCGCAAGCGCCTTGAGGCCGCTTTGGCAGACTTGAAAGGAATATTG

upper sequence: AT2G30410.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA12G34820.1 (Glycine max), 3'ss of exon 2
gtacagatttcattgtttatctctctgtattcgaagattcggagcccgtctttgttcgtcagaatctagaaatgctgtgttgtgctgtgtttagacttggtttttcctaatctgtgtatgtggtgatgcagGAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTG
                                           |    |||   ||| | |  |||    | ||   | |   | | | | |  | ||  ||||  ||  ||     |  |  |||  ||||||||||| |||| ||||||||||||||||||||| || |||| ||| || || ||| | || ||||| ||| | ||       |||
-------------------------------------------gtatatctccattcttta--atc----actgtgctttcaggttatctctt-atttacttttctctgttcaaaacaaattttga--cagGAAAATGTCTTGGCTGAGTCTAGGATGATGATTCCTGACTGCCGCAAGCGCCTTGAGGCCGCTTTGGCAGACTTGAAAGGATTATTG

upper sequence: AT2G30410.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv15s0021g01180.t01 (Vitis vinifera), 3'ss of exon 2
gtacagatttcattgtttatctctctgtattcgaagattcggagcccgtctttgttc-gtcaga-atctagaaatgctgtgttgtgctgtgtttagacttggtttttcctaatctgtgtatgtggtgatgcagGAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTG
                            | |  |  |   | |  |  | ||| ||  || | | || | | | |    |||| |      |  | ||    ||| || |    ||   || |||    ||||||||||||| ||| ||| || |||||||||||||| ||||| | ||| || || ||| |  || | ||||| || ||    ||||||
---------------------------aagtgaagaagcagaaatcaatttttattttgtgatatattttgtagtatcctgttttttcacatcaaaaccccctttatctt--cttgatcatttgg----gcagGAAAATGTGCTGGCTGAATCAAGGATGATGATTCCTGATTGTCGCAAGCGCCTGGAGGCCTCACTAGCTGATCTAAAAGGAACTTTG

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|124720338|gb|EH811740.1|EH811740
EST:     CTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAG                         GAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGT
genomic: CTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAGgtacagattt ... ggtgatgcagGAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGT
EST: gi|164124514|gb|ES017761.1|ES017761
EST:     TGCTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAG                         GAAA-TGTGTTGGGT
genomic: TGCTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAGgtacagattt ... ggtgatgcagGAAAATGTGTTGGGT
EST: gi|47831397|gb|CK121081.1|CK121081
EST:     CTGCTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAG                         GAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGT
genomic: CTGCTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAGgtacagattt ... ggtgatgcagGAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGT
EST: gi|125014068|gb|EL086337.1|EL086337
EST:     CTGCTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAG                         GAAAATGTGTTGGGTGAGT
genomic: CTGCTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAGgtacagattt ... ggtgatgcagGAAAATGTGTTGGGTGAGT
EST: gi|125013737|gb|EL086006.1|EL086006
EST:     CTGCTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAG                         GAAAATGTGTTGGGTGAGTCTAGGAT
genomic: CTGCTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAGgtacagattt ... ggtgatgcagGAAAATGTGTTGGGTGAGTCTAGGAT
EST: gi|125099750|gb|EL155449.1|EL155449
EST:     CTGCTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAG                         GAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCG
genomic: CTGCTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAGgtacagattt ... ggtgatgcagGAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCG
EST: gi|124864196|gb|EH948633.1|EH948633
EST:     CTTAAACAACAG                         GAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACG
genomic: CTTAAACAACAGgtacagattt ... ggtgatgcagGAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACG
EST: gi|124908815|gb|EH982895.1|EH982895
EST:     TGCTGATCCCTACGACCTTAAACAACAG                         GAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGT
genomic: TGCTGATCCCTACGACCTTAAACAACAGgtacagattt ... ggtgatgcagGAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGT
EST: gi|164217100|gb|ES037804.1|ES037804
EST:     TGCTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAG                         GAAAATGTGTTGGGT
genomic: TGCTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAGgtacagattt ... ggtgatgcagGAAAATGTGTTGGGT
EST: gi|86074489|gb|DR370246.1|DR370246
EST:     CTGCTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAG                         GAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGT
genomic: CTGCTGATATGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAGgtacagattt ... ggtgatgcagGAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGT
EST: gi|124837160|gb|EH921599.1|EH921599
EST:     TGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAG                         GAAGATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGT
genomic: TGAAGGACAAAGGTGCTGATCCCTACGACCTTAAACAACAGgtacagattt ... ggtgatgcagGAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgttgtgctgtgtttagacttggtttttcctaatctgtgtatgtggtgatgcagGAAAATGTGTTGGGTGAGTCTAGGATGATGATTCCGGATTGCCACAAACGTCTCGAGTCTGCATTGGCTGACCTCAAGTCCACTTTG
                            tcctaat  putative branch site (score: 2)
                        ttttt  TA-rich tract