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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAACATGTCCCACTTCGTGTCCTAAGATCAAAAGGCTTGCTTAAGAAAATCGTGTTCACCACGGTTATTACAGACTTAAGCACTTGCCATCCTACATGgtttgttgttttatcaaatcgttcatgtggttctcttttcttaatatattgttacaacatgtttgttttgatgtttag

Basic information

species Arabidopsis thaliana
transcript AT4G31780.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G31780.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA17G33780.1 (Glycine max), 5'ss of exon 3
TGCAACATGTCCCACTTCGTGTCCTAAGATCAAAAGGCTTGCTTAAGAAAATCGTGTTCACCACGGTTATTACAGACTTAAGCACTTGCCATCCTACATGgtt-----tgttgttttatcaaatcgttcatgtggttctcttttc--ttaatatattgttacaacatgtttgttttgatgtttag
|||| || || ||||||||  |  | || || || ||  |  | ||||| || || || || || ||||||||||| |||||||| |||||||| ||||||||     |||| |||||| | ||  |   |       || | ||  ||    |||| | ||| | | ||| || |  | |||||
TGCAGCACGTTCCACTTCGAATTTTGAGGTCTAAGGGTCTTTTAAAGAAGATTGTTTTTACTACTGTTATTACAGATTTAAGCACATGCCATCCAACATGgttagttttgtttttttataatattttcttttcaaaaatcatatcaattgtcttattttgacatcttatttcttgttttctttag

upper sequence: AT4G31780.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv04s0008g06920.t01 (Vitis vinifera), 5'ss of exon 3
TGCAACATGTCCCACTTCGTGTCCTAAGATCAAAAGGCTTGCTTAAGAAAATCGTGTTCACCACGGTTATTACAGACTTAAGCACTTGCCATCCTACATGgtttgttgttttatcaaatcgttcatgtggttctcttttcttaatat-attgtta--caacatgtttgttttgatgtttag
|||||||||| ||||| ||| |  | ||  |||| ||| |  | || || ||||| ||||| || ||  ||||||| |||||||||||||||||||||||||  |||  |      |||  ||| | || | || | || | | | |  || | |  | |||| | | |  | ||||||||
TGCAACATGTTCCACTCCGTATTTTGAGGGCAAAGGGCCTTTTGAAAAAGATCGTCTTCACAACAGTAGTTACAGATTTAAGCACTTGCCATCCTACATGgtaggtt-ctacccataatgtttcctttgatactatattttcagtgttgttataatcctacatttctctactcatgtttag

upper sequence: AT4G31780.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S33_287V6.1 (Physcomitrella patens), 5'ss of exon 3
TGCAACATGTCCCACTTCGTGTCCTAAGATCAAAAGGCTTGCTTAAGAAAATCGTGTTCACCACGGTTATTACAGACTTAAGCACTTGCCATCCTACATGgtttg----ttgttttatcaaatcgttcatgtggttctcttttct-taatatattgttacaacatgtttgttttgatgtttag----------------------------------------------------------------------------------------------------------------
|||| ||| | ||| | || ||  ||||| |    ||||| ||| | || |||   ||||| || || ||||||||| | ||||||||||||||||||||||       ||  |||     |   ||||| |  ||||  | ||  |  ||||   ||    ||| ||  || |  |                                                                                                                      
TGCAGCATATTCCATTGCGGGTTTTAAGAGCTCGGGGCTTACTTGATAAGATCCCTTTCACAACTGTCATTACAGACCTGAGCACTTGCCATCCTACATGgtaaaacactttctttcctgtagaattcatctttttcttatctccattttatacaatttaggcatattatttctactagaagacgccgtaattgtctctgcttgtgctccgtggtttttttgttctctctctctctctctctctctctctctctctctcacgcacacacatacgtatatatttcgtttgtggcag

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|125105144|gb|EL158998.1|EL158998
EST:     CATCCTACATG                         GTTTCATAAGCTTGTGACAAGATGTTATTGCCCATCAACAGAAGTGGCAAA
genomic: CATCCTACATGgtttgttgtt ... tgatgtttagGTTTCATAAGCTTGTGACAAGATGTTATTGCCCATCAACAGAAGTGGCAAA