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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatactcttaaaccctaattcttctatattcgatctccaattgcttcattactgctaaagtcttcgtttttcccactttgcgattcagGGGTCTTGTGTTGATCACATTCTCGCGGAGCCCTTCGTTCTATTTGCAATTGTTGAAGCAAAAAGGAATCGTTGTCTCTTCATCTTCTAAATG

Basic information

species Arabidopsis thaliana
transcript AT2G18410.2
intron # 1
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|86053445|gb|DR349202.1|DR349202
EST:     CTTCTCACAAATCTATCTTCTTCAATTTTAGCTGGAAAATCCTCGTCGCA                         GGGTCTTGTGTTGATCACATTCTCGCGGAGCCCTTCGTTCTATTTGCAATT
genomic: CTTCTCACAAATCTATCTTCTTCAATTTTAGCTGGAAAATCCTCGTCGCAgtatactctt ... tgcgattcagGGGTCTTGTGTTGATCACATTCTCGCGGAGCCCTTCGTTCTATTTGCAATT
EST: gi|86053448|gb|DR349205.1|DR349205
EST:     CTTCTCACAAATCTATCTTCTTCAATTTTAGCTGGAAAATCCTCGTCGCA                         GGGTCTTGTGTTGATCACATTCTCGCGGAGCCCTTCGTTCTATTTGCAATT
genomic: CTTCTCACAAATCTATCTTCTTCAATTTTAGCTGGAAAATCCTCGTCGCAgtatactctt ... tgcgattcagGGGTCTTGTGTTGATCACATTCTCGCGGAGCCCTTCGTTCTATTTGCAATT
EST: gi|19876059|gb|AU236890.1|AU236890
EST:     CTTCTCACAAATCTATCTTCTTCAATTTTAGCTGGAAAATCCTCGTCGCA                         GGGTCTTGTGTTGATCACATTCTCGCGGAGCCCTTCGTTCTATTTGCAATT
genomic: CTTCTCACAAATCTATCTTCTTCAATTTTAGCTGGAAAATCCTCGTCGCAgtatactctt ... tgcgattcagGGGTCTTGTGTTGATCACATTCTCGCGGAGCCCTTCGTTCTATTTGCAATT
EST: gi|86053446|gb|DR349203.1|DR349203
EST:     CTTCTCACAAATCTATCTTCTTCAATTTTAGCTGGAAAATCCTCGTCGCA                         GGGTCTTGTGTTGATCACATTCTCGCGGASCC-TTCGTTCTATTTGCAATT
genomic: CTTCTCACAAATCTATCTTCTTCAATTTTAGCTGGAAAATCCTCGTCGCAgtatactctt ... tgcgattcagGGGTCTTGTGTTGATCACATTCTCGCGGAGCCCTTCGTTCTATTTGCAATT
EST: gi|86053447|gb|DR349204.1|DR349204
EST:     CTTCTCACAAATCTATCTTCTTCAATTTTAGCTGGAAAATCCTCGTCGCA                         GGGTCTTGTGTTGATCACATTCTCGCGGAGCC-TTCGTTCTATTTGCAATT
genomic: CTTCTCACAAATCTATCTTCTTCAATTTTAGCTGGAAAATCCTCGTCGCAgtatactctt ... tgcgattcagGGGTCTTGTGTTGATCACATTCTCGCGGAGCCCTTCGTTCTATTTGCAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctccaattgcttcattactgctaaagtcttcgtttttcccactttgcgattcagGGGTCTTGTGTTGATCACATTCTCGCGGAGCCCTTCGTTCTATTTGCAATTGTTGAAGCAAAAAGGAATCGTTGTCTCTTCATCTTCTAAATG
                   tgctaaa  putative branch site (score: 2)
                           tcttcgtttttcccac  CT-rich tract
           ttcatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatactcttaaaccctaattcttctatattcgatctccaattgcttcattactgctaaagtcttcgtttttcccactttgcgattcagGGGTCTTGTGTTGATCACATTCTCGCGGAGCCCTTCGTTCTATTTGCAATTGTTGAAGCAAAAAGGAATCGTTGTCTCTTCATCTTCTAAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA