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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagtttcagatttttctcttgcaagcatacaactaaactctgtggaatatggttttttgagtattatcgtttttcaaaatattgtgtagTGCTTGCTGAATGGAAGCCTCCGGTATATGACAATGATGGCGGAATTGTGCTGGTGACTGCAACTACACGCCGGAATTCACCCAAC

Basic information

species Arabidopsis thaliana
transcript AT5G27410.2
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G27410.2 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GLYMA19G42530.1 (Glycine max), 3'ss of exon 12
------------gtaaagtttcagatttttctcttgcaagcatacaactaaactctgtggaatatggttttttgagtattatcgtttttcaaaatattgtgtagTGCTTGCTGAATGGAAGCCTCCGGTATATGACAATGATGGCGGAATTGTGCTGGTGACTGCAACTACACGCCGGAATTCACCCAAC
            |  || |   ||||     | |     |  | ||   | | ||    | |||     |||  | |||  |  || || |||    | || ||||||||||||||||||||| || |||||||| |||    | || || || || || || || || || ||||| |||||||| || 
gtgtcatttgtggagaaatacaagatggcattttcatgtgttttcactgatattcaaatggatagacaatttatactatattgattctttaaa----tatgcagTGCTTGCTGAATGGAAGCCCCCAGTATATGATAATAGACGTGGTATAGTTCTTGTAACAGCCACAACGCGCCGTAATTCACCTAAT

upper sequence: AT5G27410.2 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: GLYMA03G40000.1 (Glycine max), 3'ss of exon 12
------gtaaagtttca-gatttttctcttgcaagcat-acaactaa-actctgtggaatatggttttttgagtattatcgtttttcaaaatattgtgtagTGCTTGCTGAATGGAAGCCTCCGGTATATGACAATGATGGCGGAATTGTGCTGGTGACTGCAACTACACGCCGGAATTCACCCAAC
       |    |||||  || | |   || |    || |  ||| | | ||    | |||     ||   | ||  || | || |      | | || ||||||||||||||||||||| || |||||||| |||    | || || || || || ||||| || |||||||| |||||||| || 
gttttcatgtgttttcataatgtgtaagttaccttgattatcactgatattcaaatggatagacaattgatactaa-attgattcttctttcaatatgcagTGCTTGCTGAATGGAAGCCCCCAGTATATGATAATACACGTGGTATAGTTCTTGTAACTGCTACAACACGCCGTAATTCACCAAAT

upper sequence: AT5G27410.2 (Arabidopsis thaliana), 3'ss of exon 22
lower sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 22
-------gtaaagtttcagatttttctcttgcaagcatacaactaaactctgtggaatatggttttttgagtatta--tcgtttttcaaaatattgtgtagTGCTTGCTGAATGGAAGCCTCCGGTATATGACAATGATGGCGGAATTGTGCTGGTGACTGCAACTACACGCCGGAATTCACCCAAC
         |||  | |   |||||   || |    | |  |    |  |    | ||| | ||  ||    |  |  || | | ||   | |   || ||||||||||||||||||||| || || |||||||||      || |||   ||||||||||| |||||||| || |||||||| || 
ttattctaaaaaactaccccttttttggttacctctagaatatgctatccctatgtataggtttccttacacagcagttcatgtctcttga-aaaatgcagTGCTTGCTGAATGGAAGCCACCCGTCTATGACAATACAAAGGGTATTACTCTGGTGACTGCTACTACACGTCGTAATTCACCAAAT

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|116467245|gb|EG509837.1|EG509837
EST:     CACATCTGGAATGAGCCCTGCATTTAACCGTTATGGATGTACTTTGATCG                         TGCTTGCTGAATGGAAGCCTCCGGTATATGACAATGATGGCGGAATTGTGC
genomic: CACATCTGGAATGAGCCCTGCATTTAACCGTTATGGATGTACTTTGATCGgtaaagtttc ... tattgtgtagTGCTTGCTGAATGGAAGCCTCCGGTATATGACAATGATGGCGGAATTGTGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaactctgtggaatatggttttttgagtattatcgtttttcaaaatattgtgtagTGCTTGCTGAATGGAAGCCTCCGGTATATGACAATGATGGCGGAATTGTGCTGGTGACTGCAACTACACGCCGGAATTCACCCAAC
 aactaaa  putative branch site (score: 2)
                           tattatcgtttttcaa  TA-rich tract