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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAAgtgagtgttactacagcactcggtccaatgattttatgatgttgtggcttattatatagttcatttcggaaaaacattttctgcgttgctggtatgattg...

Basic information

species Arabidopsis thaliana
transcript AT1G52360.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os02g11840.2 (Oryza sativa), 5'ss of exon 2
GTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAAgtgagtgttactacagcactcggtccaatgattttatgatgttgtggcttattatatagttcatttcggaaaaac--attttctgcgttgctggtatgattg---
 || | ||||| ||  | || |||||   ||| || |||||||| |||||||||||||||||||||||  ||      | |        |  ||||| |  || ||        | || |  |  |   || |   | |||  | ||  ||| ||||   |  |       
ATTGCAGATGGTGAGCGCTTACCCTTAGCTGTGAAGGAGTTGGGAACCTGTGATCTTTATCCACAAgtatgt----tcatattttctatttaaatgaatgcatcattcgcatagtgatcaagtgatgttttccaccagaaccaacttgatgc-ttgcaaatgagtcccaaa

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 5'ss of exon 11
GTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAAgtgagtgttactacagcactcggtccaatg-attttatg-atgttg-tggcttattatatagttcattt----cggaaaaacattttctgcgttgctggtatgattg
 || | ||||| ||  | || ||||||  ||| || |||||||| ||||||||||||||||||||||| |||     |     | |    | |||| ||  |  | || ||| ||  ||   ||| |    | ||    |    |||    | |   ||| ||  |       
ATTGCAGATGGTGAGCGCTTACCCTTGGTTGTGAAGGAGTTGGGAACCTGTGATCTTTATCCACAAgtaagttcatatttgctatttaaacgaatgcatcattcgcatattgatgttttccaatagaaccaacttgatgcttgcaaatgagtcccaagtttctttt-------

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 11
GTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAAgtgagtgttactacagcactcggtccaatgattttatgatgttgtggcttatt---atatagttcatttcggaaaaacattttctgcgttgctggtatgattg
 || |||||||||||||||| || |||  |||||| |||||||| ||||||||||| ||||| ||||||||||  ||  |     || ||   || |  | |   | || ||  ||| |    |||| || ||     |    ||| || || | |   |   |     
ATTGCTGATGGAGAAAGGTTACCATTGGCTGTTAAGGAGTTGGGCACCTGTGATCTCTATCCTCAAgtgagtga-acatcctttttccgtaatattaagtcacattcttttgcattacttctctatattttatcatttatgctcatattatgtgatagggacttagg--

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA07G03890.1 (Glycine max), 5'ss of exon 11
GTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAAgtgagtg----ttactacagcactcggtccaatgattttatgatgttgtggcttattatatagttcatttcggaaaaacattttctgcgttgctggtatgattg
 || |||||||||||||| | || |||  |||||| |||||||| ||||||||||| ||||||||||||||||    |  ||    |     ||  | | |  || |  ||   |   |   ||| |  || ||     |    ||  |  || | |   |   ||    
ATTGCTGATGGAGAAAGGCTACCATTGGCTGTTAAGGAGTTGGGCACCTGTGATCTCTATCCACAAgtgagtgaacatcccttttccttgatgttaagtcacattcttttgcattacttctctattttttttatcatttatgctcacatcatgtgatagggacttg----

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 11
GTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAAgtgagtgttactacagcactcggtccaatgattttatgatgttgtggcttattatatagttcatttcggaaaaacattttctgcgttgctggtatgattg-------
||||| ||||||||||| ||||| |||  ||| ||||||||||| |||||||| |||||||| ||||| |||  |  | |    ||  | |  ||| | |    | ||  ||  ||  | |    ||  | | | |     | ||  |      ||| | |||          
GTTACAGATGGAGAAAGATTGCCTTTGGCTGTGAAAGAGTTGGGAACCTGTGACCTTTATCCTCAAgtaagt--tggttcttttct-agccacatgctatc--caagtgatgatttcatgtgccatttttgttgaagtgtgaattcatttac--ctgatgtgacctttccaaa

upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 11
GTTACTGATGGAGAAAGGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAAgtgagtg---ttactacagcactcggtccaatgattttatgatgttgtggcttattatatag-ttcatttcggaaaaacattttctgcgttgctggtatgattg
||||||||||||||||| ||||| |||  |||||| ||||| || |||||||||||||| ||||||||||||    |  || | |   |   |  | |  || |||| || | |   | ||||| | | ||   || ||       |  | | | |||||   |      
GTTACTGATGGAGAAAGATTGCCTTTGGCTGTTAAGGAGTTAGGAACCTGTGATCTTTACCCACAAgtgagttgactgtcttctggcattatttaattttttctatggtgctttatttcattattttgctttgctttggtgtggtttcatgtcctttgctcccacc----

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|125227209|gb|EL241294.1|EL241294
EST:     GGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA                         AGCTTGAAGCACAACCCTAATGGGAGGTTTGTCGTAAGTCTGTGGTGACGG
genomic: GGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAAgtgagtgtta ... tgaatctcagAGCTTGAAGCACAACCCTAATGGGAGGTTTGTCGTA-GTCTGTGGTGACGG
EST: gi|164216170|gb|ES151403.1|ES151403
EST:     TGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA                         AGCTTGAAGCACAACCCTAATGGGAGGTTTGTCGTAGTCTGTGGTGACGGA
genomic: TGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAAgtgagtgtta ... tgaatctcagAGCTTGAAGCACAACCCTAATGGGAGGTTTGTCGTAGTCTGTGGTGACGGA
EST: gi|124993814|gb|EL066083.1|EL066083
EST:     GGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA                         AGCTTGAAGCACAACCCTAATGGGAGGTTTGTCGTAGTCTGTGGTGAC
genomic: GGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAAgtgagtgtta ... tgaatctcagAGCTTGAAGCACAACCCTAATGGGAGGTTTGTCGTAGTCTGTGGTGAC
EST: gi|125002489|gb|EL074758.1|EL074758
EST:     GGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA                         AGCTTGAAGCACAACCCTAATGGGAGGTTTGTCGTAGTCTGTGGTGACGGA
genomic: GGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAAgtgagtgtta ... tgaatctcagAGCTTGAAGCACAACCCTAATGGGAGGTTTGTCGTAGTCTGTGGTGACGGA
EST: gi|19878420|gb|AU239251.1|AU239251
EST:     GGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA                         AGCTTGAAGCACAACCCTAATGGGAGGTTTGTCGTAGTCTGTGGTGACGGA
genomic: GGTTGCCCTTGAGTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAAgtgagtgtta ... tgaatctcagAGCTTGAAGCACAACCCTAATGGGAGGTTTGTCGTAGTCTGTGGTGACGGA