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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattattggattcttactctccttcctgattgatttttaagtttgcagctagactcaagtctctgtttttcttctaccagGGATCTTCTGTTGGAATTTACTTCATCAATCGCCCAGAGTGGCTCATTGTTGATCATGCTTGTTCTTCTTATTCTTATGTGTCTGTTCCTTTGTATGATA

Basic information

species Arabidopsis thaliana
transcript AT3G05970.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G05970.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA10G39540.1 (Glycine max), 3'ss of exon 5
gtaaattattggattcttactctccttcctgattgatttttaagtttgcagctagactcaagtctctgtttttcttc--------taccagGGATCTTCTGTTGGAATTTACTTCATCAATCGCCCAGAGTGGCTCATTGTTGATCATGCTTGTTCTTCTTATTCTTATGTGTCTGTTCCTTTGTATGATA
|| |||   | |||| | | | || |   |||||  | ||| | |||  |   ||  ||| ||  |  ||  | | |        |   |||| ||   | ||||  | || || || ||  | || |||||||||||||||||||||||||| ||||| || || | ||| || || ||| |||||||||
gtgaat-gctagattgt-agtttcatggttgattattattttattttttacaaagtatcatgtaaccattggtttacatgctcatttttagGGCTCCAGTATTGGGTTGTATTTTATTAACAGACCTGAGTGGCTCATTGTTGATCATGCTTGCTCTTCATACTCATTTGTATCAGTGCCTCTGTATGATA

upper sequence: AT3G05970.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G28200.1 (Glycine max), 3'ss of exon 5
gtaaattattggattcttactctccttcctgattgatttttaagtttgcagctagactcaagtctctgtt--------tttcttctaccagGGATCTTCTGTTGGAATTTACTTCATCAATCGCCCAGAGTGGCTCATTGTTGATCATGCTTGTTCTTCTTATTCTTATGTGTCTGTTCCTTTGTATGATA
|| |||   | |||| | | | || |  |||||   | ||| | |||  |   ||  ||| ||  |  ||        | |  | |   |||| ||   | ||||  | || || || ||  | || |||||||||||||||||||||||||| ||| | || || | ||| || || ||| |||||||||
gtgaat-gctagattgt-agtttcatggctgatcattatttcattttttacaaagtatcatgtaaccattggtttacatgttcttttttagGGCTCCAGTATTGGGTTGTATTTTATTAACAGACCTGAGTGGCTCATTGTTGATCATGCTTGCTCTGCATACTCATTTGTATCAGTGCCTCTGTATGATA

upper sequence: AT3G05970.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv05s0020g03080.t01 (Vitis vinifera), 3'ss of exon 5
-----------------------------------------------------------------------------------------------------------gtaaattattggattcttactctccttcc---tgattgatttttaagtttgcagctagactc---aagtctctgtttttcttctaccagGGATCTTCTGTTGGAATTTACTTCATCAATCGCCCAGAGTGGCTCATTGTTGATCATGCTTGTTCTTCTTATTCTTATGTGTCTGTTCCTTTGTATGATA
                                                                                                             | ||| |   || | | || || |  |   || ||     || | ||| |   |    |    || | |   ||  |  | || |||||||||| ||||||  | || || |||||  | || ||||||||||||||||||||||| || ||| | | ||| ||||| || |||||||| ||||| |
gtgagttgtccaaattctaaattaagtttgaacattgtcatgcactcttaattttgttcttggattggacttatgtttttctaaaatgttttgtgaaaacatctactcaagattttcaaatccattctttcttaacatttggttatccattgattttcctttttttttttttaaattttctttaatgctgtaacagGGATCTTGTGTTGGCCTATATTTTATCAACAGACCTGAGTGGCTCATTGTTGATCATGCCTGCTCTGCATTTTCATATGTATCAGTTCCTTTATATGACA

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|124854555|gb|EH938992.1|EH938992
EST:     CAGCAAGAACTGCTTTAGGTTCTGGTTTGGTTCATCACGGAATCCCCATG                         GGATCTTCTGTTGGAA
genomic: CAGCAAGAACTGCTTTAGGTTCTGGTTTGGTTCATCACGGAATCCCCATGgtaaattatt ... cttctaccagGGATCTTCTGTTGGAA
EST: gi|124919303|gb|EH993076.1|EH993076
EST:     CAGCAAGAACTGCTTTAGGTTCTGGTTTGGTTCATCACGGAATCCCCATG                         GGATCTTCTGTTGGAATTTACTT
genomic: CAGCAAGAACTGCTTTAGGTTCTGGTTTGGTTCATCACGGAATCCCCATGgtaaattatt ... cttctaccagGGATCTTCTGTTGGAATTTACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgattgatttttaagtttgcagctagactcaagtctctgtttttcttctaccagGGATCTTCTGTTGGAATTTACTTCATCAATCGCCCAGAGTGGCTCATTGTTGATCATGCTTGTTCTTCTTATTCTTATGTGTCTGTTCCTTTGTATGATA
                                  tctctgtttttcttct  CT-rich tract
     tgatttttaagttt  TA-rich tract