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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTGGTATCTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcactaggcatgtaatttgtagtgcttttgaattttaatgggaatagattagatgaatacagaaacatctcctataacatggatatgaatgaagagaagtttacatttttttgccattgcag

Basic information

species Arabidopsis thaliana
transcript AT1G05720.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G05720.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv05s0094g00490.t01 (Vitis vinifera), 5'ss of exon 2
AGTTGGTATCTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcactaggcatgtaatttgtagtgcttttgaattttaatgggaatagattagatgaatacagaaacatctcctataacatggatatgaatgaagagaagtttacatttttttgccattgcag
|||| ||||||||||| ||||| |||||  | || |||||||| |||||||||||||||||| |     | |     |  || | | |  ||||   | ||     | |  |||| || ||  | ||  | || |   | ||   ||  | |  |   |                            
AGTTAGTATCTGATTGTTTGAAGTGTTGCACAGAGGATTCTGATGATTCCATGAGCAAGgtatggatgat-gtttcatgcttagaatttgttttctctctttcaaagtagtgatt-gaggatgatagtcaaatgtatcaaaatggggtgaagcgtcctgca--------------------------
















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|86078488|gb|DR374245.1|DR374245
EST:     CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
genomic: CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
EST: gi|86022918|gb|DR318671.1|DR318671
EST:     CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
genomic: CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
EST: gi|86022908|gb|DR318661.1|DR318661
EST:     CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGCATGAGGAAGTTGGTTTTC
genomic: CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
EST: gi|124796441|gb|EH886120.1|EH886120
EST:     AATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAG
genomic: AATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAG
EST: gi|86022912|gb|DR318665.1|DR318665
EST:     CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
genomic: CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
EST: gi|19878749|gb|AU239580.1|AU239580
EST:     CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
genomic: CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
EST: gi|164230118|gb|ES086203.1|ES086203
EST:     TGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
genomic: TGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
EST: gi|86022917|gb|DR318670.1|DR318670
EST:     CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
genomic: CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
EST: gi|86022913|gb|DR318666.1|DR318666
EST:     CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
genomic: CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
EST: gi|125114132|gb|EL164683.1|EL164683
EST:     ATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
genomic: ATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
EST: gi|86022916|gb|DR318669.1|DR318669
EST:     CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAATTGGTTTTC
genomic: CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
EST: gi|86022914|gb|DR318667.1|DR318667
EST:     CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
genomic: CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
EST: gi|86022909|gb|DR318662.1|DR318662
EST:     CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
genomic: CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
EST: gi|86022911|gb|DR318664.1|DR318664
EST:     CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
genomic: CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
EST: gi|86022915|gb|DR318668.1|DR318668
EST:     CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
genomic: CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
EST: gi|86022907|gb|DR318660.1|DR318660
EST:     CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAG                         GTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC
genomic: CTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcac ... gccattgcagGTTACCTATTCTGGCGCTATATTAGAGGTGTGTATGAGGAAGTTGGTTTTC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTTGGTATCTGATTGCTTGAAATGTTGTGCTGATGATTCTGAGGATTCCATGAGCAAGgtacgatcactaggcatgtaatttgtagtgcttttgaattttaatgggaatagattagatgaatacagaaacatctcctataacatggatatgaatgaagagaagtttacatttttttgccattgcag

- - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG