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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcaatattaactgaaagatatataaagttccatgtttcgttatttttttagtaaggtttgttaatttttgcttcttgatatgtgacactagGGCCATGAAAATGCAACTGCTGAGAATGGACCATGGATCATTACACTGGATGCTCCTAGTTATCTTCCTGTCATGCAACATGCTAAAAACCGTGCTCTGC

Basic information

species Arabidopsis thaliana
transcript AT5G65620.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G65620.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os02g58340.1 (Oryza sativa), 3'ss of exon 5
gtatcaatattaactgaaagatatataaagttccatgtttcgttatttt--tttagtaaggtttgttaatttttgcttcttgatatgtgac---actagGGCCATGAAAATGCAACTGCTGAGAATGGACCATGGATCATTACACTGGATGCTCCTAGTTATCTTCCTGTCATGCAACATGCTAAAAACCGTGCTCTGC
                     ||||||| | |  |     | |||||     |||  |    |   |   ||   |    ||| | |  |      ||||| |||||||||||  | ||||| || |||||||||||||| ||| ||||||| || || ||| || |||| ||||| |||||    ||| | || || |
--------------------gtatataa-gctataaacaccattattgaagcttaaaagttctctcttgattcatcacactgacaagccattttgttagGGTCATGAAAATGCTTCGGCTGAAAACGGACCATGGATCATCACATTGGATGCGCCAAGCTATATTGCTGTTATGCAGCATGCACGGAACAGAGCACTTC

upper sequence: AT5G65620.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G133919_T01 (Zea mays), 3'ss of exon 5
gtatcaatattaactgaaagatatataaagttccatgtttcgttatttttttagtaaggtttgttaatttttgcttcttgatatgtgacactagGGCCATGAAAATGCAACTGCTGAGAATGGACCATGGATCATTACACTGGATGCTCCTAGTTATCTTCCTGTCATGCAACATGCTAAAAACCGTGCTCTGC
            |||   | |  || ||| |  ||    | | | ||| ||   | |  | | |    |  ||       ||||       ||||||||||||||||| || ||||| |||||||| ||| | || ||  ||||||| || || ||| ||||||| ||||||||||||  |||| | |  || |
----------gtacttgcacagctacaaaatctcag---tagctgtttcttctattacttctatatgctgatgacaagcaatat----tgttagGGCCATGAAAATGCTACAGCTGAAAATGGACCTTGGGTTATCACGTTGGATGCACCAAGCTATATTCCTGTTATGCAACATGCTCGAAACAGAGAGCTCC

upper sequence: AT5G65620.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA01G02480.1 (Glycine max), 3'ss of exon 5
--gtatcaatattaactgaaagatatataaagtt-ccatgtttcgttatttttttagtaaggtttgttaatttttgctt-cttgatatgtgacactagGGCCATGAAAATGCAACTGCTGAGAATGGACCATGGATCATTACACTGGATGCTCCTAGTTATCTTCCTGTCATGCAACATGCTAAAAACCGTGCTCTGC
  || ||| |||| ||   | | | | ||   ||   || ||       | |   | | || | |||| | || || || ||| ||  |  |    |||| ||||||||||| || ||||||||||| |||||||| |||||| | ||||||||||||| | || |||| ||||||||||||   |||||| || |||
gtgtgtca-tattgac---atgttttgtacttttattatattctcaaggtatgaaaatcagctatgttgagttctggttacttaatgggcaaatgcagGGGCATGAAAATGCCACCGCTGAGAATGGGCCATGGATAATTACATTAGATGCTCCTAGTTTTATTGCTGTTATGCAACATGCTCGCAACCGTTCTTTGC

upper sequence: AT5G65620.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA09G33490.1 (Glycine max), 3'ss of exon 5
gtatcaatattaactgaaagatatataaagttccatgtttcgttatttttttagtaaggtttgttaatttttgctt-cttgatatgtgacactagGGCCATGAAAATGCAACTGCTGAGAATGGACCATGGATCATTACACTGGATGCTCCTAGTTATCTTCCTGTCATGCAACATGCTAAAAACCGTGCTCTGC
          ||  | |     | ||    |   || |   |    | |   | | || | |||| | ||||| || ||| |   |       |||| ||||||||||| || ||||||||||| |||||||| |||||| | ||||||||||||| | || |||| ||||||||||||   |||||| || |||
---------gtatgtcatgttgacatgttttgttatttgctgaaggtatgacaatcagctatgttgagttttgattacttaacgggcacatgcagGGGCATGAAAATGCCACCGCTGAGAATGGGCCATGGATAATTACATTAGATGCTCCTAGTTTTATTGCTGTTATGCAACATGCTCGCAACCGTTCTTTGC

upper sequence: AT5G65620.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv00s0211g00060.t01 (Vitis vinifera), 3'ss of exon 5
-----------------gta--tcaatatta--actgaaagatatataaagttcc--atgtttcgttatttttttagtaaggtttgttaatttttgcttct--tgatatgtga-cact--agGGCCATGAAAATGCAACTGCTGAGAATGGACCATGGATCATTACACTGGATGCTCCTAGTTATCTTCCTGTCATGCAACATGCTAAAAACCGTGCTCTGC
                 |||  ||||| ||    ||     ||  ||    ||||  | ||   || || ||   | |     || | | ||||||||| |  | || |   | ||||  |||| ||| || |||| |||||||||||||| || ||||| |||||| |||||| ||| || | |||| |||| |||||||||||| |||||||| |  |||
gtatttttagctgatttgtagctcaatttttttgcttgttaatccatttccttcctcaagtccagtaatattggcaattct-cttctcattttttgcttatgctcatctacaatcacttcagGGGCATAAAGATGCTACTGCTGAGAATGGGCCTTGGATAATTACATTGGATGGTCCAAGCTTTCTTTCTGTTATGCAACATGCTCAAAACCGTTCCTTGC

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|124729808|gb|EH821210.1|EH821210
EST:     ATTGCCTCCATTCTGCTCTTGGGCTATTCGCACAAGCAGCTGTCTCCAAG                         GGCCATGAAAATGCAACTG
genomic: ATTGCCTCCA-TCTGCTCTTGGGCTATTCGCACAAGCAGCTGTCTCCAAGgtatcaatat ... gtgacactagGGCCATGAAAATGCAACTG
EST: gi|86086112|gb|DR381871.1|DR381871
EST:     GATTGCCTCCATCTGCTCTTGGGCTATTCGCACAAGCAGCTGTCTCCAAG                         GGCCATGAAAATGCAACTGCTGAGAATGGACCATGGATCATTACACTGGAT
genomic: GATTGCCTCCATCTGCTCTTGGGCTATTCGCACAAGCAGCTGTCTCCAAGgtatcaatat ... gtgacactagGGCCATGAAAATGCAACTGCTGAGAATGGACCATGGATCATTACACTGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgttatttttttagtaaggtttgttaatttttgcttcttgatatgtgacactagGGCCATGAAAATGCAACTGCTGAGAATGGACCATGGATCATTACACTGGATGCTCCTAGTTATCTTCCTGTCATGCAACATGCTAAAAACCGTGCTCTGC
     atttttttagtaaggt  TA-rich tract