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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcctttctctctttctcttcttttctctttctctcataccatttgggacaatagagcattatcttgatggatttttgggttaatattggacagGAACTTTCACTCTGTATGGATTGGTTTGTGCATTCACAGTGGTGTTCGTGACTCTATGGGTTCCTGAGACCAAAGGCAAAACTCTTGAAGAACTTCAATC

Basic information

species Arabidopsis thaliana
transcript AT1G75220.1
intron # 16
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|125046686|gb|EL118955.1|EL118955
EST:     CCTGGAGCAGTGGAG                         GAACTTTCACTCTGTATGGATTGGTTTGTGCATTCACAGTGGTGTTCGTGA
genomic: CCTGGAGCAGTGGAGgttcctttct ... tattggacagGAACTTTCACTCTGTATGGATTGGTTTGTGCATTCACAGTGGTGTTCGTGA
EST: gi|124780450|gb|EH870393.1|EH870393
EST:     TTAGCCTGGAGCAGTGGAG                         GAACTTTCACTCTGTATGGATTGGTTTGTGCATTCACAGTGGTGTTCGTGA
genomic: TTAGCCTGGAGCAGTGGAGgttcctttct ... tattggacagGAACTTTCACTCTGTATGGATTGGTTTGTGCATTCACAGTGGTGTTCGTGA
EST: gi|125091921|gb|EL149744.1|EL149744
EST:     CTGTTAGCCTGGAGCAGTGGAG                         GAACTTTCACTCTGTATGGATTGGTTTGTGCATTCACAGTGGTGTTCGTGA
genomic: CTGTTAGCCTGGAGCAGTGGAGgttcctttct ... tattggacagGAACTTTCACTCTGTATGGATTGGTTTGTGCATTCACAGTGGTGTTCGTGA
EST: gi|86087762|gb|DR383521.1|DR383521
EST:     TTGGTTGATCACCATGACAGCAAATTTGCTGTTAGCCTGGAGCAGTGGAG                         GAACTTTCACTCTGTATGGATTGGTTTGTGCATTCACAGTGGTGTTCGTGA
genomic: TTGGTTGATCACCATGACAGCAAATTTGCTGTTAGCCTGGAGCAGTGGAGgttcctttct ... tattggacagGAACTTTCACTCTGTATGGATTGGTTTGTGCATTCACAGTGGTGTTCGTGA
EST: gi|124920040|gb|EH993778.1|EH993778
EST:     CACCATGACAGCAAATTTGCTGTTAGCCTGGAGCAGTGGAG                         GAACTTTCACTCTGTATGGA
genomic: CACCATGACAGCAAATTTGCTGTTAGCCTGGAGCAGTGGAGgttcctttct ... tattggacagGAACTTTCACTCTGTATGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatttgggacaatagagcattatcttgatggatttttgggttaatattggacagGAACTTTCACTCTGTATGGATTGGTTTGTGCATTCACAGTGGTGTTCGTGACTCTATGGGTTCCTGAGACCAAAGGCAAAACTCTTGAAGAACTTCAATC
                                       ggttaat  putative branch site (score: 4)
                                         ttaatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcctttctctctttctcttcttttctctttctctcataccatttgggacaatagagcattatcttgatggatttttgggttaatattggacagGAACTTTCACTCTGTATGGATTGGTTTGTGCATTCACAGTGGTGTTCGTGACTCTATGGGTTCCTGAGACCAAAGGCAAAACTCTTGAAGAACTTCAATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC