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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGGAAGACAGACTGCAGCATGCCAATGGAGCTGTTGTCTTGGCAACAGTCAAAGTGTTTTTACAATTAACTCTCTCCATGACTGATGTTCATCAACAGgtttaaagtccacctcctctatctttaatcatcgaaaattattcctaatgaaattagttatgtgcggaatttcatgaacaaatttgtaaaatagtctctg...

Basic information

species Arabidopsis thaliana
transcript AT5G11490.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G11490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os01g43630.1 (Oryza sativa), 5'ss of exon 6
GTTGGAAGACAGACTGCAGCATGCCAATGGAGCTGTTGTCTTGGCAACAGTCAAAGTGTTTTTACAATTAACTCTCTCCATGACTGATGTTCATCAACAGgt-------ttaaagtccacctcctctatctttaatcatcgaaaattattcctaatgaaattagttatgtgcggaatttcatgaacaaatttgtaaaatagtctctg
  | || |||||||| |||||||| |||||||||||||| ||||||||| ||||||| ||| | || || ||  | || |||||||||||||| || |||||       ||  ||   |  |    ||  |    |  | |||  || |  ||  |     ||   || | | ||| |||        ||   ||||          
TCTTGAGGACAGACTTCAGCATGCAAATGGAGCTGTTGTTTTGGCAACAATCAAAGTTTTTCTCCACTTGACAATGTCAATGACTGATGTTCACCAGCAGgtcttactcttgcagcatagttttgatacttacgctagtggaagtttgtcactgttatgcatacagatatactgaaattccattttgcataactaaagcc-------

upper sequence: AT5G11490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G029077_T01 (Zea mays), 5'ss of exon 4
GTTGGAAGACAGACTGCAGCATGCCAATGGAGCTGTTGTCTTGGCAACAGTCAAAGTGTTTTTACAATTAACTCTCTCCATGACTGATGTTCATCAACAGgtttaaagtccacctcct---ctatc-tttaatcatcgaaaattattcctaatgaaattagttatgtgcggaatttcatgaacaaatttgtaaaatagtctctg
| |||| || ||||| |||||||| |||||||||||||| ||||||||  | ||||| ||| | || || ||  | || ||||||||||| |||||||||||  | |    ||  ||     |||  |||    ||   |  |  |   | |  |  || ||    |||  ||   ||  | |  | ||| |  | |       
GCTGGAGGATAGACTTCAGCATGCAAATGGAGCTGTTGTTTTGGCAACGATTAAAGTTTTTCTCCATTTGACAATGTCTATGACTGATGTCCATCAACAGgtgcacatattactcccagagatatggtttggatatgagatttagtatatgagcacctttgtaggatgcataaaaacaaaatcttacttggattaaaaaa----

upper sequence: AT5G11490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: AC198725.4_FGT007 (Zea mays), 5'ss of exon 4
GTTGGAAGACAGACTGCAGCATGCCAATGGAGCTGTTGTCTTGGCAACAGTCAAAGTGTTTTTACAATTAACTCTCTCCATGACTGATGTTCATCAACAGgtttaaagtccacctcct-----ctatctttaatcatcgaaaattatt-------cctaatgaaattagttatgtgcggaatttcatgaacaaatttgtaaaatagtctctg-----------
                       | |||||||| ||||| ||||||||| | ||||| ||| | || || ||  | || |||||||||||||||||||||||  | |    ||  ||       |   ||  |||||   | ||||||       | |     ||  | || | |   |   |  ||     | || ||| |  ||   |||           
-----------------------CAAATGGAGCAGTTGTTTTGGCAACAATTAAAGTTTTTCTCCATTTGACAATGTCTATGACTGATGTTCATCAACAGGTGCACATGTTACTCCCAGAGAGgtggtttggatcatgctacattattgcaattacttttcagaagcatttctttcttgttctggatatgagatttagtatatgagcaactgttagtaacagg

upper sequence: AT5G11490.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv04s0008g03880.t01 (Vitis vinifera), 5'ss of exon 4
GTTGGAAGACAGACTGCAGCATGCCAATGGAGCTGTTGTCTTGGCAACAGTCAAAGTGTTTTTACAATTAACTCTCTCCATGACTGATGTTCATCAACAGgt--ttaaagtccacctcctctatctttaatcatcgaaaattat-tcctaatgaaattagttatgtgcgg-aatttcatgaacaaatttgtaaaatagtctctg
  |||| || || || |||||||| ||||| ||||||||  | |||||  |||| |||||| ||||||| ||  | |||||| ||||||||||||| |||||     |     || |  |||  | ||  |      || |||| | ||| || || | | ||  |     ||| |    ||   |    || |  ||| |   
CCTGGAGGATAGGCTTCAGCATGCAAATGGTGCTGTTGTACTAGCAACGATCAAGGTGTTTCTACAATTGACCTTGTCCATGGCTGATGTTCATCAGCAGgtaccctagcaaaacattttcttaccttgtttg--ataatttatatactattggaagtggatagctataacaatatttcaaatggagagttatagcagtttg--

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|164066408|gb|ES177859.1|ES177859
EST:     ATTAACTCTCTCCATGACTGATGTTCATCAACAG                         GTATATGAGCGTATTAAATCCCCACTTCTAACTCTTGTCAGTTCTGGAAGT
genomic: ATTAACTCTCTCCATGACTGATGTTCATCAACAGgtttaaagtc ... tcttgtatagGTATATGAGCGTATTAAATCCCCACTTCTAACTCTTGTCAGTTCTGGAAGT