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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATGGAGATCATGCTTCACATAAGAAGGTTATTGATTTGGTTAAAGAATACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtttgtttttgtttcctatttatctatttacttgagagtctctatgtccatgtatcgcctttgacgattagtttcattgttcatag

Basic information

species Arabidopsis thaliana
transcript AT5G52920.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os01g47080.1 (Oryza sativa), 5'ss of exon 2
TCATGGAGATCATGCTTCACATAAGAAGGTTATTGATTTGGTTAAAGAATACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtttgtttttgtttcctatttatctatttacttgagagtctctatgtccatgtatcgcctttgacgattagtttcattgttcatag--------------
 |||||||| ||||| |||||  |||| |||||||| || || || ||||| ||||| ||||| || || |||   |||||||| ||||||||||| |||||  || ||  ||   |   | | | |   ||   |  |       ||   |||       | |  |   | |  |||  |  |||              
ACATGGAGACCATGCATCACACCAGAAAGTTATTGACTTAGTAAAGGAATATAATGCTCAAACAAAGGATAACGTGATTGCTATTATGCTTGACACGAAGgtcagtattatttctttgagtttttgtactctaatgtatgggcggttcacagtaatcatcctaagaacctgctatatttgtgttagtcttacacagagta

upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA20G30430.1 (Glycine max), 5'ss of exon 2
TCATGGAGATCATGCTTCACATAAGAAGGTTATTGATTTGGTTAAAGAATACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtt-tgtttttgtttcctatttatctatttac--ttgagagtctctatgtccatgtatcgcctttgacgattagtttcattgttcatag-------------------------------
||| ||||| |||||||| ||| ||||  |||||||||||||||||||||| ||||| ||| | || ||||||   ||||| || |||||||| ||||||||  |  ||  |||   | || |  |  || |  || |   |  || ||| | | |   |  | |   |      || | | |||||                                 
TCACGGAGACCATGCTTCTCATCAGAAAATTATTGATTTGGTTAAAGAATATAATGCTCAATCCAAGGACAACGTAATTGCAATTATGCTTGATACCAAGgtgataattaagttctttcttcaagttattgccttttaagattactttgttcgtatcatgtttctttggtcacagtttagttttcatgtcagctgataattcatttttctctcttttcag

upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA10G37210.1 (Glycine max), 5'ss of exon 2
TCATGGAGATCATGCTTCACATAAGAAGGTTATTGATTTGGTTAAAGAATACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgt--ttgtttttgtttcctatttatctatttacttg-agagtctctatgtccatgtatcgcctttgacgattagtttcattgttcatag-------------------------------
||||||||| |||||||| ||| ||||  |||||||||||||||||||||| ||||| ||| | || |||||    ||||| || |||||||| ||||||||  |  || |  | | |  |  |  ||||  |||  |  |   || ||| ||| |  |   | |   |      || | | |||||                                 
TCATGGAGACCATGCTTCTCATCAGAAAATTATTGATTTGGTTAAAGAATATAATGCTCAATCCAAGGACAATGTAATTGCAATTATGCTTGATACCAAGgtgataattatgttcttccttcaagttattagcttttaaggatactttgttcatatcacatttctttggtcacagtttagttttcatgtcagctgataattaatttttctctcttttcag

upper sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv16s0050g02180.t01 (Vitis vinifera), 5'ss of exon 2
TCATGGAGATCATGCTTCACATAAGAAGGTTATTGATTTGGTTAAAGAATACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtttgtttt-tgtttcctatttatc-tatttac-ttgagagtctctatgtccatgtatcgcctttgacga-ttagtttcattgttcatag-------------------------------------------------------------------------------
||||||||||||||| || ||| ||||||||||||||||||| ||||| || ||||||||| | ||||| ||    ||||| ||||||||||| |||||||   ||||| |  ||  | ||| || || |||| ||    ||  ||   | ||  |       ||||| | ||   |   |||||   |                                                                                
TCATGGAGATCATGCATCTCATCAGAAGGTTATTGATTTGGTAAAAGAGTATAATGCACAATCCAAAGATAATGTCATTGCAATCATGCTTGATACCAAGgcaagttttctagttgttctttgtcctacttacattttatgttgctgcattcagttgcttaaattgaccagtttactaagttgttggaatgctcagataatacccttcatttagtggatcccttcttacttggcaattatcttgtttacttccttttctttgctaccag

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|116479876|gb|EG522468.1|EG522468
EST:     ACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAG                         GGTCCGGAAGTTAGGAGTGGAGATTTACCTCAGCCAATTATGTTAGATCCT
genomic: ACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtttgttttt ... ttgttcatagGGTCCGGAAGTTAGGAGTGGAGATTTACCTCAGCCAATTATGTTAGATCCT
EST: gi|86057237|gb|DR352994.1|DR352994
EST:     ACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAGG                         GGTCCGGAAGTTAGGAGTGGAGATTTACC
genomic: ACAATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtttgttttt ... ttgttcatagGGTCCGGAAGTTAGGAGTGGAGATTTACC
EST: gi|86057128|gb|DR352885.1|DR352885
EST:     AATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAG                         GGTCCGGAAGTTAGGAGTGGAGATTTACCTCAGCCAATTATGTTAGATCCT
genomic: AATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtttgttttt ... ttgttcatagGGTCCGGAAGTTAGGAGTGGAGATTTACCTCAGCCAATTATGTTAGATCCT
EST: gi|86057145|gb|DR352902.1|DR352902
EST:     AATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAG                         GGTCCGGAAGTTAGGAGTGGAGATTTACCTCAGCCAATTATGTTAGATCCT
genomic: AATGCACAAACTAAAGACAACACTATTGCTATCATGCTTGACACCAAGgtttgttttt ... ttgttcatagGGTCCGGAAGTTAGGAGTGGAGATTTACCTCAGCCAATTATGTTAGATCCT