Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaacacttgtgatgttttgagatgatatcttagttaagagtatatatatatatcaataggttaataatcgtctcttggttggtggtggcagGCTGATAATTTGAGACTACAAACATTGCAACAGATGATAAGAGTATTAACAACGAGACAGTCAGCACGTGCTCTACTTGCAATACACGATTACTTCTCAC

Basic information

species Arabidopsis thaliana
transcript AT5G06950.3
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G06950.3 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: LOC_Os03g20310.4 (Oryza sativa), 3'ss of exon 8
-gtacaacacttgtgatgt---tttgagatgatatcttagttaag-agtatatatatatatcaataggttaataatcgtctcttgg-ttggtggtggcagGCTGATAATTTGAGACTACAAACATTGCAACAGATGATAAGAGTATTAACAACGAGACAGTCAGCACGTGCTCTACTTGCAATACACGATTACTTCTCAC
 ||    |  || | || |    ||  |||        ||||  | |   | || ||    |  |   ||  | |     |||    ||  |  || |||||||| |||||| | |  || || || || || |||    || |  | ||||   ||||  | || |||||||||||||||||||| |||||||||||||
tgtgttccctttcttatttgtgcttttgatcccgagcaagttctgcaagttttagatgaccctttttttttctgaagagttctaatcttctttctgccagGCTGACAATTTGCGGCAGCAGACTTTACATCAAATGCAGCGAATTCTGACAATCCGACAAGCTGCCCGTGCTCTACTTGCAATACATGATTACTTCTCAC
















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|164047787|gb|EL991412.1|EL991412
EST:     ACTCGAAGGATTTATCCGCCAG                         GCTGATAATTTGAGACTACAAACATTGCAACAGATGATAAGAGTATTAACA
genomic: ACTCGAAGGATTTATCCGCCAGgtacaacact ... gtggtggcagGCTGATAATTTGAGACTACAAACATTGCAACAGATGATAAGAGTATTAACA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agagtatatatatatatcaataggttaataatcgtctcttggttggtggtggcagGCTGATAATTTGAGACTACAAACATTGCAACAGATGATAAGAGTATTAACAACGAGACAGTCAGCACGTGCTCTACTTGCAATACACGATTACTTCTCAC
                      ggttaat  putative branch site (score: 4)
     atatatatatatcaat  TA-rich tract