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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgatgtttttttcttggtctcgggaactttctttgaagttatgtttcttccttgtgtattatccctaacggaactgtcatcattttgtgctaacagAAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAGGAAGATCAGGATGTACGGATCAAAGTTGGCTACGAAATGTTTGATAAG

Basic information

species Arabidopsis thaliana
transcript AT1G76405.2
intron # 3
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|86072417|gb|DR368174.1|DR368174
EST:     TAACCTTTAATATTAAAGGGCGGTGTGATATTGATCAGGACTTAAATCAG                         AAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAG
genomic: TAACCTTTAATATTAAAGGGCGGTGTGATATTGATCAGGACTTAAATCAGgttcgatgtt ... gtgctaacagAAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAG
EST: gi|86072415|gb|DR368172.1|DR368172
EST:     TAACCTTTAATATTAAAGGGCGGTGTGATATTGATCAGGACTTAAATCAG                         AAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAG
genomic: TAACCTTTAATATTAAAGGGCGGTGTGATATTGATCAGGACTTAAATCAGgttcgatgtt ... gtgctaacagAAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAG
EST: gi|86072411|gb|DR368168.1|DR368168
EST:     TAACCTTTAATATTAAAGGGCGGTGTGATATTGATCAGGACTTAAATCAG                         AAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAA
genomic: TAACCTTTAATATTAAAGGGCGGTGTGATATTGATCAGGACTTAAATCAGgttcgatgtt ... gtgctaacagAAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAA
EST: gi|86072404|gb|DR368161.1|DR368161
EST:     TAACCTTTAATATTAAAGGGCGGTGTGATATTGATCAGGACTTAAATCAG                         AAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAG
genomic: TAACCTTTAATATTAAAGGGCGGTGTGATATTGATCAGGACTTAAATCAGgttcgatgtt ... gtgctaacagAAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAG
EST: gi|164123044|gb|EL987094.1|EL987094
EST:     GGACTTAAATCAG                         AAGAACCCCAAAAGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAG
genomic: GGACTTAAATCAGgttcgatgtt ... gtgctaacagAAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAG
EST: gi|86072406|gb|DR368163.1|DR368163
EST:     TAACCTTTAATATTAAAGGGCGGTGTGATATTGATCAGGACTTAAATCAG                         AAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAG
genomic: TAACCTTTAATATTAAAGGGCGGTGTGATATTGATCAGGACTTAAATCAGgttcgatgtt ... gtgctaacagAAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAG
EST: gi|86072405|gb|DR368162.1|DR368162
EST:     TAACCTTTAATATTAAAGGGCGGTGTGATATTGATCAGGACTTAAATCAG                         AAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAG
genomic: TAACCTTTAATATTAAAGGGCGGTGTGATATTGATCAGGACTTAAATCAGgttcgatgtt ... gtgctaacagAAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttcttccttgtgtattatccctaacggaactgtcatcattttgtgctaacagAAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAGGAAGATCAGGATGTACGGATCAAAGTTGGCTACGAAATGTTTGATAAG
                     ccctaac  putative branch site (score: 2)
             tgtattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcgatgtttttttcttggtctcgggaactttctttgaagttatgtttcttccttgtgtattatccctaacggaactgtcatcattttgtgctaacagAAGAACCCCAAAGGAGCAGCAGAATTTGCCTGGAACATAATGGATTTCAAGGAAGATCAGGATGTACGGATCAAAGTTGGCTACGAAATGTTTGATAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG