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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtcgttggattgggattataagatgctgacagtgatggatgacatggttttgctgtcttgacacccacacgatggcgtattcctgtaccgagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGTGCGCCGGTATGGAACAACAACAACTCCATGACAGTGGGGACGCGCGGTC

Basic information

species Chlamydomonas reinhardtii
transcript EDP00871
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|10785653|gb|AV642325.1|AV642325
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|49462387|gb|BP090300.1|BP090300
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|6548949|gb|AV394733.1|AV394733
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|22067149|gb|BQ817372.1|BQ817372
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|10777114|gb|AV633794.1|AV633794
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|22068250|gb|BQ818189.1|BQ818189
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|8932860|gb|BE227621.1|BE227621
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|10792144|gb|AV629510.1|AV629510
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|22060823|gb|BQ813924.1|BQ813924
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|22069902|gb|BQ819380.1|BQ819380
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|49468817|gb|BP096678.1|BP096678
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|14240802|gb|BG859618.1|BG859618
EST:     GATCCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: GAT-CGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|6549728|gb|AV395512.1|AV395512
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|6544288|gb|AV390072.1|AV390072
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|10771169|gb|AV621992.1|AV621992
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|15691958|gb|BI716263.1|BI716263
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|22075188|gb|BQ823948.1|BQ823948
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|10784886|gb|AV641558.1|AV641558
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|49467763|gb|BP095624.1|BP095624
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|10775671|gb|AV632351.1|AV632351
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|22071695|gb|BQ821033.1|BQ821033
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|34985582|gb|CF559499.1|CF559499
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|6545451|gb|AV391235.1|AV391235
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|6545840|gb|AV391624.1|AV391624
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|49462731|gb|BP090644.1|BP090644
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|14239601|gb|BG858417.1|BG858417
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|10794479|gb|AV631845.1|AV631845
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|6542376|gb|AV388160.1|AV388160
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|34986788|gb|CF560705.1|CF560705
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|14227441|gb|BG846257.1|BG846257
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
EST: gi|22076101|gb|BQ824877.1|BQ824877
EST:     TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAG                         ATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT
genomic: TGATCGCCTCGTTGCAAGCTTCCGCGTCGTTGTAAATGGACCCAGCGAAGgtgaatttcc ... gagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggttttgctgtcttgacacccacacgatggcgtattcctgtaccgagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGTGCGCCGGTATGGAACAACAACAACTCCATGACAGTGGGGACGCGCGGTC
           tcttgac  putative branch site (score: 3)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtcgttggattgggattataagatgctgacagtgatggatgacatggttttgctgtcttgacacccacacgatggcgtattcctgtaccgagcacacagATTCGCCCCTCGTCCGCGTACAACACCCCCTACTGGACCACCAACAGCGGTGCGCCGGTATGGAACAACAACAACTCCATGACAGTGGGGACGCGCGGTC

tgtcgtt
- - - - - - - - - - - - - - -acagtga
- - - - - - - - - - - - - - - - - - tggatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acccaca