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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctctctgtcttgatatctctcactgtttactctccatattcaaggagtagtaccgataataacttctcgatttccaaattggaacagTTCTTGGTGGCGCCCTCAGGTGTAAAAGGTGGAAGCATATCCTTCTCTGGATGCATTCAGTTAATGGGTTTCTGCACATTTGAAGCGTGTGTAGGAATCT

Basic information

species Arabidopsis thaliana
transcript AT1G64650.2
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|164218776|gb|ES186992.1|ES186992
EST:     TGCTTCCTGTTGTAACAAGC                         TTCTTGGTGGCGCCCTCAGGTGTAAAAGGTGGAAGCATATCCTTCTCTGGA
genomic: TGCTTCCTGTTGTAACAAGCgtatgctctc ... attggaacagTTCTTGGTGGCGCCCTCAGGTGTAAAAGGTGGAAGCATATCCTTCTCTGGA
EST: gi|164151049|gb|EL979426.1|EL979426
EST:     TCGTATTTGTGATATCTTCTGCTGCTCTAATGCTTCCTGTTGTAACAAGC                         TTCTTGGTGGCGCCCTCAGGTGTAAAAGGTGGAAGCATAT
genomic: TCGTATTTGTGATATCTTCTGCTGCTCTAATGCTTCCTGTTGTAACAAGCgtatgctctc ... attggaacagTTCTTGGTGGCGCCCTCAGGTGTAAAAGGTGGAAGCATAT
EST: gi|124753612|gb|EH843742.1|EH843742
EST:     TCGTATTTGTGATATCTTCTGCTGCTCTAATGCTTCCTGTTGTAACAAGC                         TTCTTGGTGGCGCCCTCAGGTGTAAAAGGTGGAAGC
genomic: TCGTATTTGTGATATCTTCTGCTGCTCTAATGCTTCCTGTTGTAACAAGCgtatgctctc ... attggaacagTTCTTGGTGGCGCCCTCAGGTGTAAAAGGTGGAAGC
EST: gi|164091798|gb|ES072170.1|ES072170
EST:     CTGCTGCTCTAATGCTTCCTGTTGTAACAAGC                         TTCTTGGTGGCGCCCTCAGGTGTAAAAGGTGGAAGCATATCCTTCTCTGGA
genomic: CTGCTGCTCTAATGCTTCCTGTTGTAACAAGCgtatgctctc ... attggaacagTTCTTGGTGGCGCCCTCAGGTGTAAAAGGTGGAAGCATATCCTTCTCTGGA
EST: gi|86062547|gb|DR358304.1|DR358304
EST:     TCGTATTTGTGATATCTTCTGCTGCTCTAATGCTTCCTGTTGTAACAAGC                         TTCTTGGTGGCGCCCTCAGGTGTAAAAG
genomic: TCGTATTTGTGATATCTTCTGCTGCTCTAATGCTTCCTGTTGTAACAAGCgtatgctctc ... attggaacagTTCTTGGTGGCGCCCTCAGGTGTAAAAG
EST: gi|124761493|gb|EH851623.1|EH851623
EST:     CGTATTTGTGATATCTTCTGCTGCTCTAATGCTTCCTGTTGTAACAAGC                         TTCTTGGTGGCGCCCTCAGGTGTAAAAGGTGGAAGCATATCCTTCTCTGG
genomic: CGTATTTGTGATATCTTCTGCTGCTCTAATGCTTCCTGTTGTAACAAGCgtatgctctc ... attggaacagTTCTTGGTGGCGCCCTCAGGTGTAAAAGGTGGAAGCATATCCTTCTCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccatattcaaggagtagtaccgataataacttctcgatttccaaattggaacagTTCTTGGTGGCGCCCTCAGGTGTAAAAGGTGGAAGCATATCCTTCTCTGGATGCATTCAGTTAATGGGTTTCTGCACATTTGAAGCGTGTGTAGGAATCT
                        taataac  putative branch site (score: 1)
                       ataataactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgctctctgtcttgatatctctcactgtttactctccatattcaaggagtagtaccgataataacttctcgatttccaaattggaacagTTCTTGGTGGCGCCCTCAGGTGTAAAAGGTGGAAGCATATCCTTCTCTGGATGCATTCAGTTAATGGGTTTCTGCACATTTGAAGCGTGTGTAGGAATCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC