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'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgtctcttaactttgctttcaagattaccttgatacgatgaggcttctccaaaatctgctatatttctgttttgaaatgcttttatgttagagccatctttcttcttcgtgcttctgctgctaatattattttttgtacgacagAGGATGATACTAGCATACCAACTGATGAAAAGGTTCCCATCCTGATAGCTTTTCACCGGCACATATACGATACTGATTGGCATTATTCAT

Basic information

species Arabidopsis thaliana
transcript AT4G34640.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G34640.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA11G11960.3 (Glycine max), 3'ss of exon 2
gttagtgtctcttaactttgctttcaagattaccttgatacgatgaggcttctccaaaatctgctatatttctgttttgaaatgcttttatgttagagccatctttcttcttcgtgcttctgctgctaatattattttttgtacgacagAGGATGATACTAGCATACCAACTGATGAAAAGGTTCCCATCCTGATAGCTTTTCACCGGCACATATACGATACTGATTGGCATTATTCAT
                                  || | ||  | |   |  || |   |  || |   |||| || |  |  | ||  |    |  || |||| | || || ||| || |  | ||         |||  |  ||||||||||||||||||||||  ||| ||||  ||||| || || |||||||| |||||||| || || || |||  ||||||||| | |||||
---------------------------------gtttaaaccttaaaattattctat--tgagcaactgttctattcttcagagattaaa----aaggctatctatattgtt-gtgattttttttct---------tttcttttgacagAGGATGATACTAGCATAGAAACAGATGTCAAGGTGCCAATACTGATAGCCTTTCACCGTCATATTTATGATCGTGATTGGCACTTTTCAT

upper sequence: AT4G34640.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA12G04220.3 (Glycine max), 3'ss of exon 2
gttagtgtctcttaactttgctttcaagattaccttgatacgatgaggcttctccaaaatctgctatatttctgttttgaaatgcttttatgttagagccatctttcttcttcgtgcttctgctgctaatattattttttgtacgacagAGGATGATACTAGCATACCAACTGATGAAAAGGTTCCCATCCTGATAGCTTTTCACCGGCACATATACGATACTGATTGGCATTATTCAT
                                                  | |  |||   |   ||  |||| ||  | ||   || | |  |  ||  ||       ||   |   | || || |||| || ||||   |  ||||||||||||||||||||||  ||| ||||  ||||| || || |||||||| |||||||| || || || |||  ||||||||| | |||||
-----------------------------------------------ttatgtttaaaccttaaaattattctattgagcaactattcttttcttcagaaattaaaaggctatttatat-tgttg-taatttttttttccttttgacagAGGATGATACTAGCATAGAAACAGATGTCAAGGTGCCAATACTGATAGCCTTTCACCGTCATATTTATGATCGTGATTGGCACTTTTCAT
















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|163995222|gb|ES073009.1|ES073009
EST:     GTGTGTGTGTTCTACTTGGTTCTCCGAGCTCTTGATACTGTTG                         AGGATGATACTAGCATACCAAC
genomic: GTGTGTGTGTTCTACTTGGTTCTCCGAGCTCTTGATACTGTTGgttagtgtct ... tgtacgacagAGGATGATACTAGCATACCAAC
EST: gi|164185988|gb|ES009632.1|ES009632
EST:     CTACTTGGTTCTCCGAGCTCTTGATACTGTTG                         AGGATGATACTAGCATACCAACTGATGAAAAGGTTCCCATCCTGATAGCTT
genomic: CTACTTGGTTCTCCGAGCTCTTGATACTGTTGgttagtgtct ... tgtacgacagAGGATGATACTAGCATACCAACTGATGAAAAGGTTCCCATCCTGATAGCTT
EST: gi|124957437|gb|EL032273.1|EL032273
EST:     GTGTGTGTGTTCTACTTGGTTCTCCGAGCTCTTGATACTGTTG                         AGGATGATACTAGCATACCAACTGATGAAAAGGTTCCCATC
genomic: GTGTGTGTGTTCTACTTGGTTCTCCGAGCTCTTGATACTGTTGgttagtgtct ... tgtacgacagAGGATGATACTAGCATACCAACTGATGAAAAGGTTCCCATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agagccatctttcttcttcgtgcttctgctgctaatattattttttgtacgacagAGGATGATACTAGCATACCAACTGATGAAAAGGTTCCCATCCTGATAGCTTTTCACCGGCACATATACGATACTGATTGGCATTATTCAT
                             tgctaat  putative branch site (score: 2)
                                     ttatttttt  CT-rich tract
                                taatattattttttgt  TA-rich tract