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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtttcagatgatattcagtataaaaccacaatatctatgcaacattgattcactgttaaatgttctccaaccttgcagGACTTTGGTGATAGTATTCCCGGACATGGCGGAATTACAGATAGAATGGATTGTCAG

Basic information

species Arabidopsis thaliana
transcript AT4G22340.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G22340.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G32660.2 (Glycine max), 3'ss of exon 9
-----------------gtgggtttcagatgatattcagtataaaaccacaatatctatgcaacattgattca---ctgttaaatgttctccaaccttgcagGACTTTGGTGATAGTATTCCCGGACATGGCGGAATTACAGATAGAATGGATTGTCAG
                  ||  ||||  || |   |  |   |||   |    || || |  |  | ||  ||    || |   |||| ||||   |||||||||||||||||||||||||| |||||||| |||||||| || ||||||||||| |||
gtatgttctcaaaacttatgtttttctaatcaggatgtgagcaaatataatccatttaggtcaggtagaaacagacttgctgtgtgtt-tccatttttgcagGACTTTGGTGATAGTATTCCGGGACATGGTGGAATTACCGACAGAATGGATTGCCAG

upper sequence: AT4G22340.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA20G34940.1 (Glycine max), 3'ss of exon 9
---------------gtgggtttcagatgatattcagtataaaaccacaat--atctatgca-acattgattcactgttaaatgttctccaaccttgcagGACTTTGGTGATAGTATTCCCGGACATGGCGGAATTACAGATAGAATGGATTGTCAG
                |  ||||  |     |   |||    ||  | |||  || || | | | |  || |  ||||     |||| |||   |||||||| ||||||||||||||||| |||||||| |||||||| || ||||||||||| |||
gtatgctctcaaaacttctgtttttgtaatcaggaagtgagcaaatataatccatttaggtataaacagacttgctgt-----gttc-ccatttttgcagGATTTTGGTGATAGTATTCCAGGACATGGTGGAATTACCGACAGAATGGATTGCCAG

upper sequence: AT4G22340.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv00s0187g00380.t01 (Vitis vinifera), 3'ss of exon 9
-------------------------gtgggtttcagatgatattcagtataaaaccacaatatctatg-caacattgattcactgttaaatgttctccaaccttgcagGACTTTGGTGATAGTATTCCCGGACATGGCGGAATTACAGATAGAATGGATTGTCAG
                         ||    |   | |||||| || |  ||| |  || | |   || ||   ||| ||   | ||   | |||       || ||||||||||| ||||||||||| ||||| || |||||||| ||||||||||||||||||
gttcactctggttattgttgacttagttaagtgatgctgatatgca-tggaaagcttcactgttgttgacactgttggttttttatttctttttccgatttgttacagGACTTTGGCGATAGTATTCCTGGACACGGTGGAATTACTGATAGAATGGATTGTCAG

upper sequence: AT4G22340.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: PP1S106_169V6.1 (Physcomitrella patens), 3'ss of exon 7
--------------------------------------------------------------------------------------------gtgggtttcagat----gatattcag-tataaaaccacaatatct---atgcaa-cattgatt-cactgttaaatgttctccaacc---ttgcagGACTTTGGTGATAGTATTCCCGGACATGGCGGAATTACAGATAGAATGGATTGTCAG
                                                                                            | || |||||  |    |||||  |  | |     ||      ||   |||||| | ||| || || | || ||   | |  |      | ||||||||||||||| ||| |||| || ||||| || || || ||| ||||||||||||||
gttatttcttgcaaccaattctgtatagatattaggttgcgtggtttttgcgctctactttctcggacttggctcttcatcttgttttgtgagaggatttcatgtatgggatatgaaaatgtcgggtcatctggccttggatgcaaaccttgcttacaatcttcaaccatatgtatttgaatggcagGACTTTGGTGACAGTCTTCCAGGTCATGGTGGTATGACTGATCGAATGGATTGTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaccacaatatctatgcaacattgattcactgttaaatgttctccaaccttgcagGACTTTGGTGATAGTATTCCCGGACATGGCGGAATTACAGATAGAATGGATTGTCAG
                   cattgat  putative branch site (score: 4)
                                       ttctcca  putative PPT
      aatatctat  TA-rich tract