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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagtatcagagaagcctgtaatgttttgagttttagattcgaaattggcaaattattgatcatgcttactggttttgctttgatgtgcagAATCTGAAGTCGAATCTAACAATGTGGAAACTTGGAACATTGCCTCCTGCTCTAATAGCATTTAAAGGTCATGTTCAGCCAATAGATTCCTCTTGGCATA

Basic information

species Arabidopsis thaliana
transcript AT3G01040.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G01040.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G26480.1 (Glycine max), 3'ss of exon 5
gtaaagtatcagagaag-cctgtaatg-----ttttgagttttagattcgaaattggcaaattattga--tcatgcttactggttttgctttgatgtgcagAATCTGAAGTCGAATCTAACAATGTGGAAACTTGGAACATTGCCTCCTGCTCTAATAGCATTTAAAGGTCATGTTCAGCCAATAGATTCCTCTTGGCATA
  ||| |   ||||  |    ||| ||     | ||| |  || | |    |||       |||   |  |  |  ||| ||    |      ||| ||||||||||||||| ||||| ||||||||||| ||||||||  ||||||||||| | || ||||||||||| | |||||| || || ||| |||||||||| |
tgaaactgaaagagggggttcgtattgagaattcttgggcatttggtctttaatgtttctgttaccaaaattttttttattgacagtttcactatg-gcagAATCTGAAGTCAAATCTGACAATGTGGAAGCTTGGAACCCTGCCTCCTGCTTTGATTGCATTTAAAGGACTTGTTCATCCGATTGATCCCTCTTGGCACA

upper sequence: AT3G01040.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA18G49960.1 (Glycine max), 3'ss of exon 5
-gtaaagtatcagagaagcctgtaatg-----ttttgagttttagattcgaaattggcaaattatt---gatcatgcttactggttttgctttgatgtg-cagAATCTGAAGTCGAATCTAACAATGTGGAAACTTGGAACATTGCCTCCTGCTCTAATAGCATTTAAAGGTCATGTTCAGCCAATAGATTCCTCTTGGCATA
     | ||   | |  ||| ||| ||     | ||| |  || | |    |||       |||      |  ||  ||| ||     ||||   | || |||||||||||||| || || ||||||||||| ||||||||  | ||||||||| |||| ||||||||||| | |||||| ||||| ||| |||||||||| |
aactgaataa-gggggggcccgtattgggaattcttgggcatttggtctttaatgtttctgttaccataaaatatatttattgaca--gcttcactatggcagAATCTGAAGTCAAACCTGACAATGTGGAAGCTTGGAACCCTTCCTCCTGCTTTAATTGCATTTAAAGGACTTGTTCACCCAATTGATCCCTCTTGGCACA

upper sequence: AT3G01040.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA19G03460.1 (Glycine max), 3'ss of exon 5
----gtaaagtatcagagaagcctgta-atgttt-tgagttttagattcgaaattggcaaattat-tgatcatgcttactggttttgctttgatgtgcagAATCTGAAGTCGAATCTAACAATGTGGAAACTTGGAACATTGCCTCCTGCTCTAATAGCATTTAAAGGTCATGTTCAGCCAATAGATTCCTCTTGGCATA
    ||| |  |  |     |  |||   ||| | |  |  |||| |   |   ||  ||  ||| |||| |   |     ||| |  | ||     |||||||| | |||||| || || |||||||| ||||||||  | || |||||| | || ||||| |||||||||||||| ||||| ||  |||||||||| |
gcatgtatataaatatgtgtgtgtgtgtgtgtgtgtatgcattaggtggtagtatgagaacatatgtgattagtttcttatgttctattatgtatgacagAATCTAAGGTCGAACCTGACGATGTGGAAGCTTGGAACCCTACCCCCTGCTTTGATTGCATTCAAAGGTCATGTTCACCCAATTGACCCCTCTTGGCACA

upper sequence: AT3G01040.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 5
gtaaagtatcagagaagcctgtaatgt-tttgagttttaga---ttcgaaat-tggcaaattattgat-catgcttac-tggttttgctttgatgt-gcagAATCTGAAGTCGAATCTAACAATGTGGAAACTTGGAACATTGCCTCCTGCTCTAATAGCATTTAAAGGTCATGTTCAGCCAATAGATTCCTCTTGGCATA
 | |  | | |    |   | || | | ||| | |  || |   |  |  || ||   | | |    | | | |||   | ||   || ||  ||| | ||||||||||||| || || || |||||||| ||||||||  | ||||||||| | |||||||||||||||||| |||| ||||| ||  | || ||||| |
-tgagcttttaattgattatatattttgtttaaatgataaaatttctgggatgtgcttagtcaccatttcttacttggattgtggggcctttctgttgtagAATCTGAAGTCAAACCTGACTATGTGGAAGCTTGGAACCCTACCTCCTGCTTTGATAGCATTTAAAGGTCATATTCACCCAATCGACCCATCCTGGCACA

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|116476603|gb|EG519195.1|EG519195
EST:     CTTGGAGGAAGACAAATATCAGAGAAACGTATCATTCTTGGCTTAAAGAG                         AATCTGAAGTCGAATCTAACAATGTGGAAACTTGGAACATTGCCTCCTGCT
genomic: CTTGGAGGAAGACAAATATCAGAGAAACGTATCATTCTTGGCTTAAAGAGgtaaagtatc ... tgatgtgcagAATCTGAAGTCGAATCTAACAATGTGGAAACTTGGAACATTGCCTCCTGCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattcgaaattggcaaattattgatcatgcttactggttttgctttgatgtgcagAATCTGAAGTCGAATCTAACAATGTGGAAACTTGGAACATTGCCTCCTGCTCTAATAGCATTTAAAGGTCATGTTCAGCCAATAGATTCCTCTTGGCATA
                                     ttttgcttt  CT-rich tract
              aaattattgatcat  TA-rich tract