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'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttctttttatatagaatttcatgaaaaattgaaagtcggaattgagtaacacatttttttgttacagGTTTCAGGTTAAGAAGAAGCAATTTTTTCGCAACTTCATGACCATTATGTTATTTGGTGCTATTGGAACTCTCATTTCATTTGTTATCATCTCATTTG

Basic information

species Arabidopsis thaliana
transcript AT3G06370.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G06370.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os11g42790.1 (Oryza sativa), 3'ss of exon 2
-------------gtaagttctttt----tatatagaatttcatgaaaaattgaaagtcggaattgagtaacacatttttttgtt-----------acagGTTTCAGGTTAAGAAGAAGCAATTTTTTCGCAACTTCATGACCATTATGTTATTTGGTGCTATTGGAACTCTCATTTCATTTGTTATCATCTCATTTG
             | || |||| ||     || || | ||| |    |    | |||  | |  | | |    | ||||||   |            |||||| || ||||||||||| |||||||| |||||||||||||| |||| ||| |||||||| ||||| || || || || ||   | | || ||  | |
taatcttccagtaggaaattctgttacatcatttaaagtttaacattagtcagcaaggtgaagcttactgttcctttttttctctttctttcctgagcagGTTCCAAGTTAAGAAGAAACAATTTTTCCGCAACTTCATGACTATTACGTTGTTTGGTGCGATTGGGACCCTAATCTCTTTCAGTGTAATTTCCCTCG

upper sequence: AT3G06370.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G063492_T01 (Zea mays), 3'ss of exon 3
------------------gtaagttcttttta---tataga-----atttcatgaaaa-attgaaagtcggaattgagtaacacatttttttgtta-cagGTTTCAGGTTAAGAAGAAGCAATTTTTTCGCAACTTCATGACCATTATGTTATTTGGTGCTATTGGAACTCTCATTTCATTTGTTATCATCTCATTTG
                  ||  | | | | ||   |  | |     |||||||||||  | ||||        ||    ||    | |     ||| ||||||||| || ||||| |||||||| || |||||||| || || ||||| || |||||||||||||| ||||| ||||| ||||| || |||||  |||
aatcccgtaaaacattttgtgtggtttgtataaaatccaaagctacatttcatgaaagtaatgaagtataccttttgtaaatgtttctccacattatcagGTTTCAAGTAAAGAAAAAGCAATTCTTCCGCAACTTTATAACAATTATTTTGTTTGGTGCTATTGGGACTCTGATTTCCTTTGTAATAATCTCTCTTG

upper sequence: AT3G06370.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 2
--------------------gtaagttctttttatatagaatttcatgaaaaattgaa--agtcggaattgagt---aacacatttttt---tgttacagGTTTCAGGTTAAGAAGAAGCAATTTTTTCGCAACTTCATGACCATTATGTTATTTGGTGCTATTGGAACTCTCATTTCATTTGTTATCATCTCATTTG
                      ||  |   ||||  |  |     |||     ||     || | || || | |   ||   ||| |||    ||| |||||||||||| |||||||| |||||||| ||||| || ||||| || ||| | ||||||||  |||| ||| | || |||||    || || ||| | |
aaaatgaactcatacttcaatcaaaatggatttaattgaatggctatgcttgcttctcttagactgactttaatttcaatttattctttaaccgttccagGTTTCAGGTGAAGAAGAAACAATTTTTCCGCAATTTTATGACTATAATGCTCTTTGGTGCAGTTGGTACTTTGATATCATTCTGCATAATATCACTAG

upper sequence: AT3G06370.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G38160.1 (Glycine max), 3'ss of exon 2
-------gtaagttcttt--ttatatagaatttcatg-aaaaattgaaagt------------cggaattgagt---aacacatttttt---tgttacagGTTTCAGGTTAAGAAGAAGCAATTTTTTCGCAACTTCATGACCATTATGTTATTTGGTGCTATTGGAACTCTCATTTCATTTGTTATCATCTCATTTG
        |   | |||   | |||  | |||| ||  ||  | ||    |            | || || | |   ||   ||| |||   |||| |||||||||||| |||||||| |||||||| ||||| || ||||| || ||| | ||||||||  |||| ||| | || |||||    ||||| ||| | |
tcactgaattgatacttcaatcataatggatttaatttaatgactgtgcttgcttctcttatactgacttcaatttcaatttattctttaactgttccagGTTTCAGGTGAAGAAGAAACAATTTTTCCGCAATTTTATGACTATAATGCTCTTTGGTGCAGTTGGTACTTTGATATCATTCTGCATCATATCACTAG

upper sequence: AT3G06370.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 3
----------------gtaagttctttttatatag-----aatttcatgaaaaattgaaagtcggaattgagtaacacatttttttgtt-------acagGTTTCAGGTTAAGAAGAAGCAATTTTTTCGCAACTTCATGACCATTATGTTATTTGGTGCTATTGGAACTCTCATTTCATTTGTTATCATCTCATTTG
                | |   | |||||   ||      ||   ||||  |   | | | ||||  |    |  | | | || || ||       |||| || ||||| || |||||||| |||||||| |||||||||||||| ||| | ||||| |||||||||||||| || || ||||  ||||| ||||| |
aatattagttaaagcagcattctgtttttggttaactggtaagagcatgtgaccataataatcggtttgatttgtctcttcttctttttccctgcaacagCTTCCAGGTGAAAAAGAAGCAGTTTTTTCGTAACTTCATGACCATCATGCTGTTTGGAGCTATTGGAACTCTGATATCTTTTGGCATCATATCATTAG

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|19876337|gb|AU237168.1|AU237168
EST:     GAAGATCTCTTCTTTATTTATCTTCTTCCACCAATTATATTCAACGCAGG                         GTTTCAGGTTGAGAAGAAGCAATTTTTTCGCAACTTCATGACCATTATGTT
genomic: GAAGATCTCTTCTTTATTTATCTTCTTCCACCAATTATATTCAACGCAGGgtaagttctt ... tttgttacagGTTTCAGGTTAAGAAGAAGCAATTTTTTCGCAACTTCATGACCATTATGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaatttcatgaaaaattgaaagtcggaattgagtaacacatttttttgttacagGTTTCAGGTTAAGAAGAAGCAATTTTTTCGCAACTTCATGACCATTATGTTATTTGGTGCTATTGGAACTCTCATTTCATTTGTTATCATCTCATTTG
                               gagtaac  putative branch site (score: 2)
                                         tttttttgtt  putative PPT
        atgaaaaattgaaa  TA-rich tract