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

gttagtgagtgtgattagttgaattttgcagctcctcttgtcactttgattcaattttggcatgttggttgagaatttttgagcattgcttttgttttggaatcctttagGTTGAATCAACACTAGCGATGCAAAATCTTCAACCGAAAATCAAAGCGATTCAACAACGTTACGCAGGAAATCAG

Basic information

species Arabidopsis thaliana
transcript AT2G28800.4
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G28800.4 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA11G14960.1 (Glycine max), 3'ss of exon 2
gttagtgagtgtgattagttgaattttgcagctcctcttgtcactttgattcaattttggcatgttggttgagaatttttgagcattgcttttgttttggaatcctttagGTTGAATCAACACTAGCGATGCAAAATCTTCAACCGAAAATCAAAGCGATTCAACAACGTTACGCAGGAAATCAG
         ||  |||| || |  | || |  |   ||    | |   ||  |   ||  | || |     | |||  |       |  | |  | |  |||| |   |||||||||| |||||||| ||||||||||||||||| ||||| || || |||||| |  | || || || ||||||
-----aacttgcaattattttatatatgaatttgagctctcaattaacatagatgcttcacttgattacacaaaatgct--gattgtaatataatgtatgaatac---agGTTGAATCTACACTAGCTATGCAAAATCTTCAACCAAAAATTAAGGCCATTCAAGATAGATATGCTGGCAATCAG

upper sequence: AT2G28800.4 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv06s0004g04460.t01 (Vitis vinifera), 3'ss of exon 2
gttagtgagtgtgattagttgaattttgcagctcctcttgtcactttgattcaattttggcatgttggttgagaatttttgagcattgcttttgttttggaatcctttagGTTGAATCAACACTAGCGATGCAAAATCTTCAACCGAAAATCAAAGCGATTCAACAACGTTACGCAGGAAATCAG
       ||   |||  |||  || |      | | | ||| |  |||| |   |  ||        ||||    | ||  |  ||  | |||||| |       | ||||||||||||||||| || ||||||||||||||||| || ||||| || |||||| || | ||    || ||||||
-------agcaagat--gtttcatgtccatcattcccatgtaatattgacttc-tgctgatgacactgttggtgctgttatatgatgacatttgttgtatttgtatgtagGTTGAATCAACACTGGCCATGCAAAATCTTCAACCAAAGATCAAGGCCATTCAAGAAAGATATAAGGGCAATCAG
















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|125217470|gb|EL231553.1|EL231553
EST:     CTAAGCAACAG                         GTTGAATCAACACTAGCGATGCAAAATCTTCAACCGAAAATCAAAGCGATT
genomic: CTAAGCAACAGgttagtgagt ... aatcctttagGTTGAATCAACACTAGCGATGCAAAATCTTCAACCGAAAATCAAAGCGATT
EST: gi|125029907|gb|EL102176.1|EL102176
EST:     GCGACGTATCCTTTGACTAAGCAACAG                         GTTGAATCAACACTAGCGATGCAAAATCTTCAACCGAAAATCAAAGCGATT
genomic: GCGACGTATCCTTTGACTAAGCAACAGgttagtgagt ... aatcctttagGTTGAATCAACACTAGCGATGCAAAATCTTCAACCGAAAATCAAAGCGATT
EST: gi|125293499|gb|EL307584.1|EL307584
EST:     AGCAGCGACGTATCCTTTGACTAAGCAACAG                         GTTGAATCAACACTAGCGATGCAAAATCTTCAACCGAAAATCAAAGCGATT
genomic: AGCAGCGACGTATCCTTTGACTAAGCAACAGgttagtgagt ... aatcctttagGTTGAATCAACACTAGCGATGCAAAATCTTCAACCGAAAATCAAAGCGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttggcatgttggttgagaatttttgagcattgcttttgttttggaatcctttagGTTGAATCAACACTAGCGATGCAAAATCTTCAACCGAAAATCAAAGCGATTCAACAACGTTACGCAGGAAATCAG
                                               tccttt  CT-rich tract
                agaattttt  TA-rich tract