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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcttggctacattggcaggcacgatgcttgtgtatgggctgccgcgccttcgcaaacatgtcactgaccctgctgaactcatgtcctctctccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTGTTCGAGTTCCCCAAGTTCGCCAACGGCACCGTGTCGATCGCCAACACCC

Basic information

species Chlamydomonas reinhardtii
transcript EDO98586
intron # 8
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|10778626|gb|AV635306.1|AV635306
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTG
EST: gi|161791377|gb|FC077974.1|FC077974
EST:     TGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTTCA-C                         GACGCCCTGGCCGA
genomic: TGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTT-CAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGA
EST: gi|161816099|gb|FC103794.1|FC103794
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|161806004|gb|FC089526.1|FC089526
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|22062636|gb|BQ814877.1|BQ814877
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGCCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGTCCCA
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCA
EST: gi|161808945|gb|FC094390.1|FC094390
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|161815736|gb|FC101851.1|FC101851
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|161797540|gb|FC086028.1|FC086028
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|161803417|gb|FC093046.1|FC093046
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|161792900|gb|FC082154.1|FC082154
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|161812927|gb|FC095129.1|FC095129
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCC
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCC
EST: gi|161810630|gb|FC094209.1|FC094209
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|161808389|gb|FC098462.1|FC098462
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|161792854|gb|FC082108.1|FC082108
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|161791664|gb|FC078299.1|FC078299
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|239842032|gb|GR283889.1|GR283889
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|15372888|gb|BI532314.1|BI532314
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|49459990|gb|BP087903.1|BP087903
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|161814693|gb|FC102394.1|FC102394
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|239841418|gb|GR283275.1|GR283275
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|161812995|gb|FC094313.1|FC094313
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|9441323|gb|BE441686.1|BE441686
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCC
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCC
EST: gi|161801398|gb|FC088518.1|FC088518
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|15371560|gb|BI530986.1|BI530986
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|161823322|gb|FC110116.1|FC110116
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|161817186|gb|FC101594.1|FC101594
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
EST: gi|161823089|gb|FC107387.1|FC107387
EST:     ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAAC                         GACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG
genomic: ATGGCTGGATGGGTCTGGACATTGGCCCGGACTCCGTCAAGACCTTCAACgtgagtgtgt ... tccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccttcgcaaacatgtcactgaccctgctgaactcatgtcctctctccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTGTTCGAGTTCCCCAAGTTCGCCAACGGCACCGTGTCGATCGCCAACACCC
                cactgac  putative branch site (score: 2)
                                ctcatgtcctctctcc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcttggctacattggcaggcacgatgcttgtgtatgggctgccgcgccttcgcaaacatgtcactgaccctgctgaactcatgtcctctctccacaacagGACGCCCTGGCCGACGCCAAGACCGTTGTGTGGAACGGCCCCATGGGTGTGTTCGAGTTCCCCAAGTTCGCCAACGGCACCGTGTCGATCGCCAACACCC

- - - - - - - - aggcacg
- - - - - - - - - - - - - - tgtgtat
- - - - - - - - - - - - - - - - - - - - - - - - - -gcaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcactga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaactca