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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcgatatgaaccagttaataagcctaaaaattgaagcttgagtaatggcaagtctaatattattacacatgtaaaaaagaaactatgttgttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATG

Basic information

species Arabidopsis thaliana
transcript AT1G08110.2
intron # 5
splice site 3'
intron type U2

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|86058486|gb|DR354243.1|DR354243
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGNATTTG                         GGCACATTGGGGTTACCGTTGATTATGTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTG
EST: gi|86042017|gb|DR337772.1|DR337772
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|124991086|gb|EL063355.1|EL063355
EST:     TTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGTATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATT
genomic: TTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGG-ATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATT
EST: gi|86058483|gb|DR354240.1|DR354240
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGA
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGA
EST: gi|86042021|gb|DR337776.1|DR337776
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCG
EST: gi|86058480|gb|DR354237.1|DR354237
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|86058481|gb|DR354238.1|DR354238
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|86079248|gb|DR375005.1|DR375005
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|86058489|gb|DR354246.1|DR354246
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|86086149|gb|DR381908.1|DR381908
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|301501106|gb|HO206646.1|HO206646
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|124907673|gb|EH981753.1|EH981753
EST:     TGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTACCGTTG
genomic: TGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTG
EST: gi|125232267|gb|EL246352.1|EL246352
EST:     GGTTATCACAATGGGAACGTCTGAGCCTCGTGGA-TTG                         GGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
genomic: GGTTATCACAATGGGAAC-TCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTG
EST: gi|86058485|gb|DR354242.1|DR354242
EST:     TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTG                         GGCACATTGGGGTTAC
genomic: TCCTGAGTTTAAAGGTTATCACAATGGGAACTCTGAGCCTCGTGGATTTGgtaacctcct ... gttgtcacagGGCACATTGGGGTTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggcaagtctaatattattacacatgtaaaaaagaaactatgttgttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATG
       gtctaat  putative branch site (score: 3)
          taatattattacacat  TA-rich tract
















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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atcgatatgaaccagttaataagcctaaaaattgaagcttgagtaatggcaagtctaatattattacacatgtaaaaaagaaactatgttgttgtcacagGGCACATTGGGGTTACCGTTGATGATGTGCACAAGGCATGCGAGAGATTTGAAGAATTGGGAGTAGAGTTTGCCAAGAAACCAAACGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA