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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgatttcattttctgctgtttcttctattttgtcaccgtgaaacattttctgctgtagactaatactaatatagtgttacaaatttcccttagGCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTTCGGTGTCTTGTACGCGGAAAAAAAGAGTTTCCTGTAAGAGCTGATAAGC

Basic information

species Arabidopsis thaliana
transcript AT1G76405.2
intron # 2
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:     CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAG                         GCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTT
genomic: CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAGgtttgatttc ... tttcccttagGCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTT
EST: gi|86072413|gb|DR368170.1|DR368170
EST:     CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAG                         GCTTCAACAGGCCTTGGGGTAGGATTGC
genomic: CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAGgtttgatttc ... tttcccttagGCTTCAACAGGCCTTGGGGTAGGATTGC
EST: gi|164191452|gb|ES022913.1|ES022913
EST:     CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAG                         GCTTCAACAGGCCTTGGGGTAGGA
genomic: CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAGgtttgatttc ... tttcccttagGCTTCAACAGGCCTTGGGGTAGGA
EST: gi|86072412|gb|DR368169.1|DR368169
EST:     CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAG                         GCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTT
genomic: CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAGgtttgatttc ... tttcccttagGCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTT
EST: gi|86072415|gb|DR368172.1|DR368172
EST:     CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAG                         GCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTT
genomic: CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAGgtttgatttc ... tttcccttagGCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTT
EST: gi|86072411|gb|DR368168.1|DR368168
EST:     CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAG                         GCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTT
genomic: CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAGgtttgatttc ... tttcccttagGCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTT
EST: gi|86072404|gb|DR368161.1|DR368161
EST:     CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAG                         GCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTT
genomic: CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAGgtttgatttc ... tttcccttagGCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTT
EST: gi|125307283|gb|EL321368.1|EL321368
EST:     CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAG                         GCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGC
genomic: CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAGgtttgatttc ... tttcccttagGCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGC
EST: gi|86072406|gb|DR368163.1|DR368163
EST:     CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAG                         GCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTT
genomic: CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAGgtttgatttc ... tttcccttagGCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTT
EST: gi|86072405|gb|DR368162.1|DR368162
EST:     CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAG                         GCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTT
genomic: CTGGGGCTCCGAGTTACTTCTGTGCGATGATTAGACACTTTTTTCCTGAGgtttgatttc ... tttcccttagGCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaaacattttctgctgtagactaatactaatatagtgttacaaatttcccttagGCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTTCGGTGTCTTGTACGCGGAAAAAAAGAGTTTCCTGTAAGAGCTGATAAGC
                         tactaat  putative branch site (score: 1)
                                             tttccctt  putative PPT
                    actaatactaatata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgatttcattttctgctgtttcttctattttgtcaccgtgaaacattttctgctgtagactaatactaatatagtgttacaaatttcccttagGCTTCAACAGGCCTTGGGGTAGGATTGCATTATGATAAGCGCCAAAAGCTTCGGTGTCTTGTACGCGGAAAAAAAGAGTTTCCTGTAAGAGCTGATAAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT