Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCCTACATGTTTGTCCACGATGGTCTCGTGCACAAGCGTTTCCCTGTAGGTCCCATCGCCGACGTCCCTTACCTCCGAAAGGTCGCCGCCGCTCACCAGgtaaatacaaacggtttctttcccaaaatagattttattttattattattagtatcttaataatcatatttttattgttattgatcgtgcatgattatgtttcag

Basic information

species Arabidopsis thaliana
transcript AT4G25700.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G25700.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA20G30230.2 (Glycine max), 5'ss of exon 5
CGCCTACATGTTTGTCCACGATGGTCTCGTGCACAAGCGTTTCCCTGTAGGTCCCATCGCCGACGTCCCTTACCTCCGAAAGGTCGCCGCCGCTCACCAGgtaaatacaa---acggtttc-----tttcccaaaatagattttattttattattattagtatcttaataatcatatttttattgttattg--atcgtgcatga-ttatg-tttcag-----------------------------
 |||||||||||||||||||||||  | || || ||| | |||||||| |||||||| ||| |||| || ||| |  |||  || || || |||||||| |||| || |     |  ||||     |||  ||||  | |||  |         | ||| |   ||  |     | ||| | ||  |  ||  || |    ||| ||||| | |||                              
GGCCTACATGTTTGTCCACGATGGATTGGTTCATAAGAGATTCCCTGTGGGTCCCATTGCCAACGTGCCCTACTTTAGAAGAGTTGCTGCTGCTCACCAAgtaattatatttttcattttcatatgtttagcaaagcaaattagagaaggaaggtgtta-tgcttttgtgtgtttgtttctgtttcttgtggaataggatctgaattatgatctcatgaccttgaatttttgtggtctgtattcag

upper sequence: AT4G25700.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA10G37560.1 (Glycine max), 5'ss of exon 5
CGCCTACATGTTTGTCCACGATGGTCTCGTGCACAAGCGTTTCCCTGTAGGTCCCATCGCCGACGTCCCTTACCTCCGAAAGGTCGCCGCCGCTCACCAGgtaaatacaaacg----gtttctttcccaaaatagattttatttt-attattattagtatcttaataatcatatttttattgttattgatcgtgcatgattatgtttcag---------------------------
 |||||||||||||||||||||||  | || || ||| | |||||||| |||||||| ||| |||| || ||| || |||  || || || |||||||| |||| || ||||      ||| |||   |||| | |||  |     |   |  || |  | ||  |  |  | ||| |  ||  || |    || || || || ||                               
GGCCTACATGTTTGTCCACGATGGATTAGTTCATAAGAGATTCCCTGTGGGTCCCATTGCCAACGTGCCCTACTTCAGAAGAGTTGCTGCTGCTCACCAAgtaattataaacttcacatttatttagtaaaacaaattagaaaaggaacgtgttttgggtgtttgt--ttctgtttcttgtggaataggatctgaattatgatcttatgaccttgaatttttgttgtctgtattcag

upper sequence: AT4G25700.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv16s0050g01090.t01 (Vitis vinifera), 5'ss of exon 5
CGCCTACATGTTTGTCCACGATGGTCTCGTGCACAAGCGTTTCCCTGTAGGTCCCATCGCCGACGTCCCTTACCTCCGAAAGGTCGCCGCCGCTCACCAGgtaaatacaaacggtttctttcccaaaat---agattttattttattattattagtatcttaataatcatatttttattgtt--attga-tcgtgcatgattatgtttcag-------------
 ||||||||||||||||||||||||||||| |||| | | || || || || ||||| ||  |||| || ||  || ||   || || || || ||||| ||||  |   ||     |   | | |      |  |||  |||| || |  ||    | ||  |  |  | |||||| | ||  | ||| ||   |    | || ||                 
GGCCTACATGTTTGTCCACGATGGTCTCGTCCACAGGAGATTTCCAGTGGGGCCCATTGCGAACGTGCCCTATTTCAGACGCGTAGCTGCAGCACACCAAgtaagcatgcaccaccacacacacgatccttcatttttctttttcttttccttttcctttttttgtttttttttttaattttcaactgaatccaacggcctgatcttctgatgcatggtctcag

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|86061534|gb|DR357291.1|DR357291
EST:     GTCCCATCGCCGACGTCCCTTACCTCCGAAAGGTCGCCGCCGCTCACCAG                         CTACATCACACAGACAAGTTCAATGGTGTA
genomic: GTCCCATCGCCGACGTCCCTTACCTCCGAAAGGTCGCCGCCGCTCACCAGgtaaatacaa ... tatgtttcagCTACATCACACAGACAAGTTCAATGGTGTA
EST: gi|47830828|gb|CK120512.1|CK120512
EST:     GTCCCATCGCCGACGTCCCTTACCTCCGAAAGGTCGCCGCCGCTCACCAG                         CTACATCACACAGACAAGTTCAATGGTGTACCATATGGACTGTTTCTTGGA
genomic: GTCCCATCGCCGACGTCCCTTACCTCCGAAAGGTCGCCGCCGCTCACCAGgtaaatacaa ... tatgtttcagCTACATCACACAGACAAGTTCAATGGTGTACCATATGGACTGTTTCTTGGA
EST: gi|124838031|gb|EH922470.1|EH922470
EST:     GTCCCATCGCCGACGTCCCTTACCTCCGAAAGGTCGCCGCCGCTCACCAG                         CTACATCACACAGA
genomic: GTCCCATCGCCGACGTCCCTTACCTCCGAAAGGTCGCCGCCGCTCACCAGgtaaatacaa ... tatgtttcagCTACATCACACAGA