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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatgatcttcttttttcacttcttcaatcatttaatgtttggcaaaataaacattacatttttcggttcttagattgttcatatatctctcggacgtttcaccatttatctcatcttgtctttgaattcacagATACCGCTTAGTGGGCAGTATTCCATACTCGGGAGGGCGGTTGTTGTGCATGCGGATCCTGATGACCTTGGGAAAG

Basic information

species Arabidopsis thaliana
transcript AT5G18100.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G18100.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM5G891739_T01 (Zea mays), 3'ss of exon 4
gtatatgatcttcttttttcacttcttcaatcatttaatgtttggcaaaataaacattacatttttcggttcttagattgttcatatatctctcggacgtttcacca-tttatctcatcttgtctttgaattc-acagATACCGCTTAGTGGGCAGTATTCCATACTCGGGAGGGCGGTTGTTGTGCATGCGGATCCTGATGACCTTGGGAAAG
                                                             |   ||   |   ||  |||  |||||   ||   |  ||| | ||  | ||  | | ||     ||  |||   ||||  |  | |||||||   ||||||| || || ||||| |||||||| ||||| |||||||||||||| ||||  |
-----------------------------------------------------------gttcggtcatcttgaaggatgtatatataatcctattaattttgatcaactgataacctatttctgctgctttctgaagATTTCATTGAGTGGGCCTCATTCCATTCTGGGAAGGGCAGTTGTTGTACATGCTGATCCTGATGACCTAGGGAGGG

upper sequence: AT5G18100.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G27020.1 (Glycine max), 3'ss of exon 4
gtatatgatcttcttttttcacttcttcaatcatttaatgtttggcaaaataaacattacatttttcggttcttag-attgttcatatatctctcggacgtttcaccatttatctcatcttgtctttgaattcacagATACCGCTTAGTGGGCAGTATTCCATACTCGGGAGGGCGGTTGTTGTGCATGCGGATCCTGATGACCTTGGGAAAG
                                 | |  | ||        | |   ||   ||| |    | | |   | ||| |  |   ||| | ||  || |    ||  ||| |  |  |||| |||    |||| || || | |||     | |||||| | || ||||| |||||||||||||| ||||||||||| ||||| |  |
---------------------------------tattgttttcatttggttgatatttttgtttatgaaatttgaatgtagtttaattgggtctagaacacttaa----tttcctctttctcactttcaatatgtagATTCCTCTAACTGGAGTTCACTCCATAATTGGAAGGGCCGTTGTTGTGCATGCTGATCCTGATGATCTTGGAAGGG

upper sequence: AT5G18100.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv08s0007g07280.t01 (Vitis vinifera), 3'ss of exon 4
gtatatgatcttcttttttcacttcttcaatcatttaatgtttggcaaaataaacattacatttttcggttcttagattgttcatatatctctcggacgtttcaccatttatctcatcttgtctttgaattcacagATACCGCTTAGTGGGCAGTATTCCATACTCGGGAGGGCGGTTGTTGTGCATGCGGATCCTGATGACCTTGGGAAAG
                           || | |  ||| ||||  | |  |      || || |      | || ||||| | ||| |   ||   | ||||   | || | |||   ||  |||  ||||   ||||  |  | ||||||||| ||||||| || || ||||| |||||||||||||| ||||||||||| ||||| | ||
---------------------------cattta--taaggtttctctagttttgtgata-atgtgaaaactttttgattgattataga---cttaaaagtttattccttcaactc---tttccttcaaatttgtagATTTCATTAAGTGGGCAGCATTCCATTCTGGGAAGGGCAGTTGTTGTGCATGCTGATCCTGATGATCTTGGAAGAG

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|164054049|gb|ES069208.1|ES069208
EST:     GTGTTGCTGAAATCTTAATCAAAGACAAACAT                         ATACCGCTTAGTGGGCAGTA
genomic: GTGTTGCTGAAATCTTAATCAAAGACAAACATgtatatgatc ... gaattcacagATACCGCTTAGTGGGCAGTA
EST: gi|163971940|gb|ES152668.1|ES152668
EST:     GTGTTGCTGAAATCTTAATCAAAGACAAACAT                         ATACCGCTTAGTGGGCAGTATTCCAT
genomic: GTGTTGCTGAAATCTTAATCAAAGACAAACATgtatatgatc ... gaattcacagATACCGCTTAGTGGGCAGTATTCCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatatatctctcggacgtttcaccatttatctcatcttgtctttgaattcacagATACCGCTTAGTGGGCAGTATTCCATACTCGGGAGGGCGGTTGTTGTGCATGCGGATCCTGATGACCTTGGGAAAG
                         atttatct  TA-rich tract