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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACGAGGAAAGTATGTTTGCCACTGGAAGAAGATTCTTTCCGACCCATTTTGCACCACTACGACGGTCCTAAGTTCCGACTCGAACTCAGTGTCCCTGAGgtacgtttttttcatcttctttagttcacaaccacttttttttcttacattcaaagtctaacgctttggttgtgtttttggcag

Basic information

species Arabidopsis thaliana
transcript AT5G42050.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G42050.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM5G860590_T02 (Zea mays), 5'ss of exon 4
AACGAGGAAAGTATGTTTGCCACTGGAAGAAGATTCTTTCCGACCCATTTTGCACCACTACGACGGTCCTAAGTTCCGACTCGAACTCAGTGTCCCTGAGgta--cgtttttttcat-cttctttagttcacaaccacttttttttcttacattcaaagtctaacgctttggtt---------gtgtttttggcag
|||| | ||  | |||| ||| ||||| || ||  ||||||| |||||  | |||||||||||||| || |||||| | || || |||||||||||||||||   |  || |||| | | |   |   |  |  || |     || ||    | ||| |   || |  |                 | |   ||||
AACGCGCAAGATCTGTTCGCCGCTGGAGGAGGACGCTTTCCGCCCCATCCTCCACCACTACGACGGCCCCAAGTTCAGGCTGGAGCTCAGTGTCCCTGAGgtgacctcttctttcttgcctgcctgcctgcctgcctcaacacttgctgctgtgcaaggctaaatggctaatccagaaaaaaaaaatctcatgcag

upper sequence: AT5G42050.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA13G10640.1 (Glycine max), 5'ss of exon 4
AACGAGGAAAGTATGTTTGCCACTGGAAGAAGATTCTTTCCGACCCATTTTGCACCACTACGACGGTCCTAAGTTCCGACTCGAACTCAGTGTCCCTGAGgtacgtttttttcatcttctttagttcacaacca--cttttttttcttacattcaaagtctaacgctttg-gttgtgtttttggcag------------
 || |||||||| |||  |||||| || |||||||| ||| |||| ||| | |||||||||||||| ||||||||||| || || || ||||| ||||||||| |  |    || ||| || | |     ||    | || |||  ||         ||| |     ||  ||  | |||||   |             
TACTAGGAAAGTTTGTGAGCCACTAGAGGAAGATTCCTTCAGACCAATTCTTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcat----caactttttgaatatgttactgatccttctttaattgtggatgtggtcaactaaattatgtcctcttttttttaattattatttcag
















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|124848422|gb|EH932859.1|EH932859
EST:     TGCACCACTACGACGGTCCTAAGTTCCGACNCGAACTCAGTGTCCCTGAG                         GTGCTTTCTCTATTGGACATTTTTGCTGACCAAAACCCTTGAATTGGGTAA
genomic: TGCACCACTACGACGGTCCTAAGTTCCGACTCGAACTCAGTGTCCCTGAGgtacgttttt ... tttttggcagGTGCTTTCTCTATTGGACATTTTTGCTGACCAAAACCCTTGAATTGGGTAA
EST: gi|116414001|gb|EG456593.1|EG456593
EST:     TGCACCACTACGACGGTCCTAAGTTCCGACTCGAACTCAGTGTCCCTGAG                         GTGCTTTCTCTATTGGACATTTTTGCTGACCAAAACCCTTGAATTGGGTAA
genomic: TGCACCACTACGACGGTCCTAAGTTCCGACTCGAACTCAGTGTCCCTGAGgtacgttttt ... tttttggcagGTGCTTTCTCTATTGGACATTTTTGCTGACCAAAACCCTTGAATTGGGTAA
EST: gi|116481291|gb|EG523883.1|EG523883
EST:     TGCACCACTACGACGGTCCTAAGTTCCGACTCGAACTCAGTGTCCCTGAG                         GTGCTTTCTCTATTGGACATTTTTGCTGACCAAAACCCTTGAATTGGGTAA
genomic: TGCACCACTACGACGGTCCTAAGTTCCGACTCGAACTCAGTGTCCCTGAGgtacgttttt ... tttttggcagGTGCTTTCTCTATTGGACATTTTTGCTGACCAAAACCCTTGAATTGGGTAA
EST: gi|125000542|gb|EL072811.1|EL072811
EST:     TGCACCACTACGACGGTCCTAAGTTCCGACTCGAACTCAGTGTCCCTGAG                         GTGCTTTCTCTATTGGACATTTTTGCTGACCAAAA
genomic: TGCACCACTACGACGGTCCTAAGTTCCGACTCGAACTCAGTGTCCCTGAGgtacgttttt ... tttttggcagGTGCTTTCTCTATTGGACATTTTTGCTGACCAAAA
EST: gi|125266934|gb|EL281019.1|EL281019
EST:     GGTCCTAAGTTCCGACTCGAACTCAGTGTCCCTGAG                         GTGCTTTCTCTATTGGACATTTTTGCTGACCAAAACCCTTGAATTGGGTAA
genomic: GGTCCTAAGTTCCGACTCGAACTCAGTGTCCCTGAGgtacgttttt ... tttttggcagGTGCTTTCTCTATTGGACATTTTTGCTGACCAAAACCCTTGAATTGGGTAA