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

TGCAATTGGGCAGTGTTGGCGATATGAGAGAATGACAAGAGGAAGGCGACGTGAGCATTACCAATGGAATATGGATATTATTGGTGTGCCTCAAGTAACTgtatgtacctcacaacttcaatcacttttaaggcctttgagtttcttgctatattaacctcacctgtgtttatttttttaagtcgtgccgctaatttggtttcttttag

Basic information

species Arabidopsis thaliana
transcript AT3G46100.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G46100.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os02g51830.1 (Oryza sativa), 5'ss of exon 4
TGCAATTGGGCAGTGTTGGCGATATGAGAGAATGACAAGAGGAAGGCGACGTGAGCATTACCAATGGAATATGGATATTATTGGTGTGCCTCAAGTAACTgtatgtacctcacaacttcaatcacttttaaggcctttgagtttcttgctatattaacctcacctgtgtttatttttttaagtcgtgccgctaatttggtttcttttag---------------------------
| | || || || || |||||||||||| | |||||||||||||| || ||||| ||||| |||||||| ||||||||| ||||  ||||| ||||    ||| |||      || |||  ||   | | ||     |   | || |   ||   |    |  || || | |  || |     | ||    | ||||   ||  |||||                           
TACTATAGGACAATGCTGGCGATATGAGCGTATGACAAGAGGAAGACGGCGTGAACATTATCAATGGAACATGGATATTTTTGGCATGCCTAAAGTTCGAgtaagta----gtaaattcgttctagtgtgagattcatatttgtccttggattcaagatgccactctgct-acattgtagcaccttgtt--tgattttaattgatttagaattgacttattgttaataaaaatcag

upper sequence: AT3G46100.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G158228_T01 (Zea mays), 5'ss of exon 3
TGCAATTGGGCAGTGTTGGCGATATGAGAGAATGACAAGAGGAAGGCGACGTGAGCATTACCAATGGAATATGGATATTATTGGTGTGCCTCAAGTAACTgtatgtacctcacaacttcaatcacttttaaggcctttgagtttcttgctatattaacctcacctgtgtttatttttttaagtcgtgccgctaatttggtttcttttag
| | || || || || |||||||||||| | ||||| ||||||||  | || || |||||||||||||||||||||||  ||||||||||| ||||    |||   |||   |   || | | | | |  | ||   |   || |||| ||||      | | |||  ||    ||   |  | ||    | |||| |           
TACTATAGGACAATGCTGGCGATATGAGCGCATGACCAGAGGAAGAAGGCGGGAACATTACCAATGGAATATGGATATATTTGGTGTGCCTAAAGTTCGGgtac-cacccttctcatttattgattctggatgctgct---ttgcttg-tatacc--tttgaactgatttggcattgccatcttgttgttcgaattag-----------

upper sequence: AT3G46100.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA03G34050.1 (Glycine max), 5'ss of exon 4
TGCAATTGGGCAGTGTTGGCGATATGAGAGAATGACAAGAGGAAGGCGACGTGAGCATTACCAATGGAATATGGATATTATTGGTGTGCCTCAAGTAACTgtatgtacctcacaacttcaatcacttttaaggcctttgagtttcttgctatattaacctcacctgtgtttatttttttaagtcgtgccgctaatttggtttcttttag
  |  |||| || |||||||| || |||||||||||||| ||  | || |||||||| ||||||||||| ||||||||||||||||| ||    || |  |||||| |  |||  || |  | |  |  |     |||||  || | |    |||  ||||      || |  | ||| | |        || ||         |    
CACTGTTGGACAATGTTGGCGGTACGAGAGAATGACAAGGGGGCGTCGTCGTGAGCACTACCAATGGAACATGGATATTATTGGTGTTCCCGGGGTTATGgtatgtgctgcactgctgcc-tgatatacacactttttgaagttatgg----attgtcctctttctggtctgatgtttcatgattgatatctgatccaaaaagct----

upper sequence: AT3G46100.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv08s0040g01360.t01 (Vitis vinifera), 5'ss of exon 4
TGCAATTGGGCAGTGTTGGCGATATGAGAGAATGACAAGAGGAAGGCGACGTGAGCATTACCAATGGAATATGGATATTATTGGTGTGCCTCAAGTAACTgtatgtacctcacaacttcaatcacttttaaggcctttgagtttcttgctatattaacctcacctgtgtttatttttttaagtcgtgccgctaatttggtttcttttag
|||  | || ||||||||||| ||||||||||||||||| ||| | || |||||||| |||||||||||||||||||| |||||||||||  | || |  || ||| | ||  ||| | | ||  |   |||    |    | |||| |   ||    |  | |  |  |||   | |||| |       | ||    ||||  ||   
TGCTGTAGGACAGTGTTGGCGTTATGAGAGAATGACAAGGGGACGCCGTCGTGAGCACTACCAATGGAATATGGATATCATTGGTGTGCCAGAGGTTATGgtgtgt-cttcctaacctaagtctatggaaagattctc---tctcttcc---atcgctccaaacaatcattacactattaaattac-ttaccaaccctgtttaattat-

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|116479004|gb|EG521596.1|EG521596
EST:     GTGAGCATTACCAATGGAATATGGATATTATTGGTGTGCCTCAAGTAACT                         GCTGAAGCAGAACTAATTTCATCTATAGTCACCTTCTTCAAGCGAATTGGA
genomic: GTGAGCATTACCAATGGAATATGGATATTATTGGTGTGCCTCAAGTAACTgtatgtacct ... tttcttttagGCTGAAGCAGAACTAATTTCATCTATAGTCACCTTCTTCAAGCGAATTGGA