Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTACTCTCTTCCTTTTTGTCGTCCTAAGAAGATTGTGGACAGTACTGAGAATCTTGGTGAAGTTCTTCGTGGTGACCGAATCGAAAATGCTCCTTATTCGgtttgtctctgttttgatacatttatgtatttctctttacttgactgctaacttgtggagtttggaataatgtag

Basic information

species Arabidopsis thaliana
transcript AT5G25100.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G25100.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os08g17370.1 (Oryza sativa), 5'ss of exon 2
TTAC-TCTCTTCCTTTTTGTCGTCCTAAGAAGATTGTGGACAGTACTGAGAATCTTGGTGAAGTTCTTCGTGGTGACCGAATCGAAAATGCTCCTTATTCGgtttgt--ctctgttttgatacatttatgtatttctctttacttgactgctaacttgtggagtttggaataatgtag-------
  || ||  |          | |||  |      ||| |||||| || | ||||| |||||||||||||||||||| |||||||| ||  |||| ||  ||||||||  |||| |   | |   |||   |||||||   ||  |   | ||||  | |    |||  | |  | |         
-GACATCAATCAAGACCCAGCTTCCCTACTCTTATGTCGACAGTGCTCAAAATCTCGGTGAAGTTCTTCGTGGTGATCGAATCGAGAACTCTCCATACACGgtttgttactctatcgcgttttctttgattatttcttgatatattggtcctaaggt-taatattttaacttctattctttccag

upper sequence: AT5G25100.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA14G11780.1 (Glycine max), 5'ss of exon 2
TTACTCTCTTCCTTTTTGTCGTCCTAAGAAGATTGTGGACAGTACTGAGAATCTTGGTGAAGTTCTTCGTGGTGACCGAATCGAAAATGCTCCTTATTCGgtttgtctctgttttgatac--atttatgtatttctctttac---ttgactgctaacttgtggagtttggaataatgtag---
||| |||||||||| |||||  || || || || ||||| ||| |||| |||||||| ||||| ||||||||||| || || |||||| ||| ||||  ||| ||| |    |   ||    |||  ||  ||  |  |||     ||  | | ||||| |  | |  |  |     | |   
TTATTCTCTTCCTTATTGTCCACCAAATAAAATAGTGGATAGTGCTGAAAATCTTGGAGAAGTGCTTCGTGGTGATCGCATTGAAAATTCTCGTTATGTGgtatgttttatatgaaattttaattcttgccttgttaattatgttatggttaccaacttatttactcagtgacgtatttgcag

upper sequence: AT5G25100.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA17G34020.1 (Glycine max), 5'ss of exon 2
TTACTCTCTTCCTTTTTGTCGTCCTAAGAAGATTGTGGACAGTACTGAGAATCTTGGTGAAGTTCTTCGTGGTGACCGAATCGAAAATGCTCCTTATTCGgtttgtctctgttttgatac--atttatgtatttctctttacttga---ctgctaacttgtggagtttggaata-atgtag
||| |||||||||| |||||  || || || || ||||| ||| |||| |||||||| ||||| ||||||||||| || || |||||| ||| ||||  ||| ||| |    |   ||    |||  ||| ||  |  |||  | |        ||||| |    | ||  ||| ||| ||
TTATTCTCTTCCTTATTGTCCACCAAATAAAATAGTGGATAGTGCTGAAAATCTTGGAGAAGTGCTTCGTGGTGATCGCATTGAAAATTCTCGTTATGTGgtatgttttatatgaaattttaattcttgtgttgttaattatgttatgctaatcaacttatttgctctgacatatatgcag

upper sequence: AT5G25100.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S83_105V6.1 (Physcomitrella patens), 5'ss of exon 2
TTACTCTCTTCCTTTTTGTCGTCCTAAGAAGATTGTGGACAGTACTGAGAATCTTGGTGAAGTTCTTCGTGGTGACCGAATCGAAAATGCTCCTTATTCGgtttgtctctg--ttttgatacatttatgtatttctctttacttgactgctaacttg-----tggagtttggaataatgtag-------------------------------------------------------------------------------------------------
||||||||||   |  ||    || || ||| |||   |||   ||||||| |||||||| ||||||||||| ||||| || || ||| ||||||||   ||  || || |  |  |   |  || |     || | | || |  ||   ||  ||      | || |   ||| |||  |                                                                                                  
TTACTCTCTTGACTACTGCAAGCCAAAAAAGGTTGAAAACATGGCTGAGAACCTTGGTGAGGTTCTTCGTGGCGACCGCATAGAGAATTCTCCTTATGTCgtaagtttcggagtcctatcatcttaaaaaggttttatatagtataccattagtttactgctttgattagagaacaataaattgtctatccatgcattgttcgcgtttctctgaaattaggtggaggtcaacggatcctctttgtccgcttacaacgtgaatgctgtgttcatttacag

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|124763410|gb|EH853540.1|EH853540
EST:     CCGAATCGAAAATGCTCCTTATTCG                         TTTAAAATGCGTGAGGCGCAAATGTGTAATGTTCTCGGTCGTGTTATGCTT
genomic: CCGAATCGAAAATGCTCCTTATTCGgtttgtctct ... aataatgtagTTTAAAATGCGTGAGGCGCAAATGTGTAATGTTCTCGGTCGTGTTATGCTT
EST: gi|164199577|gb|EL982641.1|EL982641
EST:     GTGGTGACCGAATCGAAAATGCTCCTTATTCG                         TTTAAAATGCGTGAGGCGCAAATGTGTAATGTTCTCG
genomic: GTGGTGACCGAATCGAAAATGCTCCTTATTCGgtttgtctct ... aataatgtagTTTAAAATGCGTGAGGCGCAAATGTGTAATGTTCTCG
EST: gi|163978300|gb|EL974280.1|EL974280
EST:     ATCTTGGTGAAGTTCTTCGTGGTGACCGAATCGAAAATGCTCCTTATTCG                         TTTAAAATGCGTGAGGCG
genomic: ATCTTGGTGAAGTTCTTCGTGGTGACCGAATCGAAAATGCTCCTTATTCGgtttgtctct ... aataatgtagTTTAAAATGCGTGAGGCG
EST: gi|125043553|gb|EL115822.1|EL115822
EST:     AAATGCTCCTTATTCG                         TTTAAAATGCGTGAGGCGCAAATGTGTAATGTTCTCGGTCGTGTTATGCTT
genomic: AAATGCTCCTTATTCGgtttgtctct ... aataatgtagTTTAAAATGCGTGAGGCGCAAATGTGTAATGTTCTCGGTCGTGTTATGCTT