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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcatttttttctcagcaagtttacacattctataaacatgattaaggatttgatgatttaataataaactgtggcagGAAATGGTGGATTTTTTGGTGGATGTGTGGGAGCAAGAAGGCTTGTATGATTGATTTGCAACTCTTTAAACTTAATTTAGTTTCATCTTTTCTTTTATGT

Basic information

species Arabidopsis thaliana
transcript AT5G25360.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G25360.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S101_116V6.3 (Physcomitrella patens), 3'ss of exon 5
--------------------------------gtaagcatttttttctcagcaagtttacacattctataaacatgat-taaggatttgatgatttaataataaactgtggcagGAAATGGTGGATTTTTTGGTGGATGTGTGGGAGCAAGAAGGCTTGTATGATTGATTTGCAACTCTTTAAACTTAATTTAGTTTCATCTTTTCTTTTATGT
                                 |   | |||| || |  |    | |   ||   |  | ||| ||| |    | ||    | | | |  |    | |  |||||||||||||| |||||||| ||||||||||||| ||| |||||||| |  |||                                              
gtacgtctgaaatcgtatactcgtccctcttttttgtctttttcttttatgggtatgtgaccagattgcagacacgatatggacactttgaaaataactgtttgcttttatcagGAAATGGTGGACTTTTTGGTCGATGTGTGGGAGCGAGAGGGCTTGTACGGGTGA----------------------------------------------

upper sequence: AT5G25360.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S104_208V6.1 (Physcomitrella patens), 3'ss of exon 5
-----------------------------------------------------------------------------------------------------------gta-agcatttttttctcagcaagttt-acacattctataaacatgattaaggatttgatgat-ttaataataaactgtg---gcagGAAATGGTGGATTTTTTGGTGGATGTGTGGGAGCAAGAAGGCTTGTATGATTGATTTGCAACTCTTTAAACTTAATTTAGTTTCATCTTTTCTTTTATGT--
                                                                                                           ||  || ||  |  |  |   |   || || | | ||| | | |   || | |  ||  ||||   | || |   ||      ||||||||||||||||||| | || ||||| ||||||||||||||  | || || | |      |     |   | | |     | || ||| |||    |  |  
gtaagtgtcaagatatgagtcttctatgtgtgagttcaggtcgccctgttttgtagaccattttttggacttaattgacaaaagcgtgttttcttagcgctggtcttgtgcagtatggtgattcctttatccttcactcttactagatatacttttcatggcttactgataccattattgggctaaacgtgcagGAAATGGTGGATTTTCTTGTTGATGTATGGGAGCAAGAAGGTCTCTACGAGTAAGACTGCATATGCTGGTCATGA--AGATGTCCTCTATTCGAACAATTTC

upper sequence: AT5G25360.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S365_37V6.1 (Physcomitrella patens), 3'ss of exon 4
----------------------gtaagcatttttttctcagca--agtttacacattctataaacatga---ttaaggatttgatgatttaataataaactgtggcagGAAATGGTGGATTTTTTGGTGGATGTGTGGGAGCAAGAAGGCTTGTATGATTGATTTGCAACTCTTTAAACTTAATTTAGTTTCATCTTTTCTTTTATGT
                         ||  |   ||||   |||  || ||     | |  |     |||   | ||     || |  |  ||  |     | | ||||||||||||||| ||| | |||||||| ||||||||||||||| | |||||  ||     ||                                       
gtatggattcatctttgcacatacgagtttccgtttcattgcattaggtttttagtccgcttcctgtgagagtcaactggctgttactgaaaccacttcgtcttgcagGAAATGGTGGACTTTCTTGTGGATGTATGGGAGCAAGAAGGCCTCTATGAAAGAAG-ATAA---------------------------------------

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|125099841|gb|EL155502.1|EL155502
EST:     AGAGCTTGTTGGGTATGAACAAGCGGTTTTCTCGTCCAATACCACTCCCT                         GAAATGGTGGATTTTTTGGTGGATGTGTGGGAGCAAGAAGGCTTGTATGAT
genomic: AGAGCTTGTTGGGTATGAACAAGCGGTTTTCTCGTCCAATACCACTCCCTgtaagcattt ... actgtggcagGAAATGGTGGATTTTTTGGTGGATGTGTGGGAGCAAGAAGGCTTGTATGAT
EST: gi|125013760|gb|EL086029.1|EL086029
EST:     AGAGCTTGTTGGGTATGAACAAGCGGTTTTCTCGTCCAATACCACTCCCT                         GAAATGGTGGATTTTT-GGTGGATGTGTGGGAG
genomic: AGAGCTTGTTGGGTATGAACAAGCGGTTTTCTCGTCCAATACCACTCCCTgtaagcattt ... actgtggcagGAAATGGTGGATTTTTTGGTGGATGTGTGGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acacattctataaacatgattaaggatttgatgatttaataataaactgtggcagGAAATGGTGGATTTTTTGGTGGATGTGTGGGAGCAAGAAGGCTTGTATGATTGATTTGCAACTCTTTAAACTTAATTTAGTTTCATCTTTTCTTTTATGT
                                 atttaat  putative branch site (score: 4)
                  attaaggatttgatga  TA-rich tract