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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTCAAGGTATTTTTGTCAACTTTAAGGACTTGTACTATTACAATGGGAAGAAACTTCCTTTTGCCGCGGCTCAAATTGGTCAAGCCTTTAGAAATGAGgtaatgtattactttgcttgatgtatgggatgtcttcatctcaatcttctttaagaaattcttttctgcattatgtctgggttttaataagtagcatattactcgcag

Basic information

species Arabidopsis thaliana
transcript AT1G29880.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G29880.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os08g42560.1 (Oryza sativa), 5'ss of exon 3
TGCTCAAGGTATTTTTGTCAACTTTAAGGACTTGTACTATTACAATGGGAAGAAACTTCCTTTTGCCGCGGCTCAAATTGGTCAAGCCTTTAGAAATGAGgtaatgtattactttgcttgatgtatgggatgtcttcatctcaatc---ttctttaagaaatt----cttttctgcattatgtctgggttttaataag--tagcatattactcgcag-------------------------------------------------------------------
 || || ||||||||||||||||| |||||||||||||||||||| ||| | || || ||||| || || |||||||| || ||||| ||  | ||||||||  ||| ||    | | |  ||| |  |   ||| ||| || ||    | ||| ||| | |     ||| |   |  || ||||     | | || |  ||| | | |   | |                                                                     
AGCACAGGGTATTTTTGTCAACTTCAAGGACTTGTACTATTACAACGGGCAAAAGCTCCCTTTCGCAGCAGCTCAAATCGGGCAAGCATTCCGTAATGAGgtc-tgtgttttgatacattttgtctttgcgttctgcatttcgattatatgcttgaaggagtctagacttattgactataggtctatagctaactatgcttaggaaactctccactatgccatggttttttagagggttctttcttttgtgttatactcactgtttctataccatgcaaatcag

upper sequence: AT1G29880.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM5G821551_T02 (Zea mays), 5'ss of exon 3
TGCTCAAGGTATTTTTGTCAACTTTAAGGACTTGTACTATTACAATGGGAAGAAACTTCCTTTTGCCGCGGCTCAAATTGGTCAAGCCTTTAGAAATGAGgtaatgtattactttgcttgatgtatgggatgtcttcatctcaatcttctttaagaaattcttttctgcattatgtctgggttttaataagtagcatattactcgcag
 || || ||||||||||| ||||| |||||  ||||||||||||||||  | || || |||||||| || ||||||||||| ||||| ||||||||||||||  ||| ||  |||||   || | |   ||| ||  | | || | | ||  |  |     |  |        ||  ||   || | |   | | |  ||  ||    
CGCACAGGGTATTTTTGTAAACTTCAAGGATCTGTACTATTACAATGGCCAAAAGCTCCCTTTTGCAGCTGCTCAAATTGGGCAAGCTTTTAGAAATGAGgtt-tgtgtttttttgccacatttctaa-atggct--accccattttactcaattatggcatgattcagtcactgcttg---ttcagtgcctcgtactttgttcttg-

upper sequence: AT1G29880.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G041797_T01 (Zea mays), 5'ss of exon 3
TGCTCAAGGTATTTTTGTCAACTTTAAGGACTTGTACTATTACAATGGGAAGAAACTTCCTTTTGCCGCGGCTCAAATTGGTCAAGCCTTTAGAAATGAGgtaatgtattactttgcttgatgtatgggatgtcttcatctcaatcttctttaagaaattcttttctgcattatgtctgggttttaataagtagcatattactcgcag
 || || ||||||||||| || || |||||  | ||||||||||||||  | || || || ||||| || ||||||||||| ||||| ||||||||||||||  ||||||  |||  |  || | |   |||  |   |   |||  |  ||     ||| | | |    | |  | | | || |    | | |     |  | ||| 
AGCACAGGGTATTTTTGTAAATTTCAAGGATCTATACTATTACAATGGCCAAAAGCTCCCCTTTGCAGCTGCTCAAATTGGGCAAGCTTTTAGAAATGAGgtt-tgtatt-ttttattacattttt---atgagtggtttctaatgatagttgtagtattatataccatttcacttgttgcttctgc--aattgtgggcttgtggca-

upper sequence: AT1G29880.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA08G47890.1 (Glycine max), 5'ss of exon 1
TGCTCAAGGTATTTTTGTCAACTTTAAGGACTTGTACTATTACAATGGGAAGAAACTTCCTTTTGCCGCGGCTCAAATTGGTCAAGCCTTTAGAAATGAGgtaa-tgtattactttgcttgatgtatgggatgtcttcatctcaatcttctttaagaaattcttttctgcattatgtctgggttttaataagtagcatattactcgcag
||| || || ||||| ||||| |||||||| ||||| ||||||||||| || || |||||||| || || || || ||||| ||||| ||||| ||||||||   |  || | |||  | |   | | |  | | ||  | | |  |||  | ||  |  | |  |||     |||  | || ||  ||        | |   | |   
TGCCCAGGGCATTTTCGTCAATTTTAAGGATTTGTATTATTACAATGGCAACAAGCTTCCTTTCGCTGCTGCGCAGATTGGCCAAGCGTTTAGGAATGAGgtgggttcatgattttcgtggcaatttagactttattttttttatactttctaaattagatatagtctttgc-atgaattgggttggatgttgtttgtgtgtttag---

upper sequence: AT1G29880.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv01s0150g00150.t01 (Vitis vinifera), 5'ss of exon 3
TGCTCAAGGTATTTTTGTCAACTTTAAGGACTTGTACTATTACAATGGGAAGAAACTTCCTTTTGCCGCGGCTCAAATTGGTCAAGCCTTTAGAAATGAGgtaatgtattactttgcttgatgtatgggatgtcttcatctcaatcttctttaagaaattcttttctgcattatgtctgggttttaataagtagcatattactcgcag
 |||||||| || ||||| || |||||||||||||||||||| ||||| |  || ||||| ||||| || |||||||| ||||| || || |||||||||||     | |  |    | ||  | |   |||| || |    | |  | ||      || || |     |   | | ||  ||  | |  |   || || | | |   
AGCTCAAGGAATATTTGTAAATTTTAAGGACTTGTACTATTATAATGGCAGCAAGCTTCCCTTTGCTGCAGCTCAAATCGGTCAGGCTTTCAGAAATGAGgtctgaaaattttcccttagaactgtaaaatgtgttaac--gagtgcttttatgtggatgctctctcataccctttgtgaattggactggg---cacatcatttg---

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|116404822|gb|EG447414.1|EG447414
EST:     AGAAACTTCCTTTTGCCGCGGCTCAAAT-GGTCAAGCCTTTAGAAATGAG                         ATATCTCCTCGA
genomic: AGAAACTTCCTTTTGCCGCGGCTCAAATTGGTCAAGCCTTTAGAAATGAGgtaatgtatt ... ttactcgcagATATCTCCTCGA