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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggaggtctcgctggatcggctctgctgggctcgaacatgggcttactctcggttctgtgccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGTTCGAGATCAAGGAGTATGACACCAACACCGTCGTGTACCAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO97256
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|161790761|gb|FC081739.1|FC081739
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|161801317|gb|FC088476.1|FC088476
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|161806843|gb|FC090144.1|FC090144
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|161808797|gb|FC097934.1|FC097934
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|15695858|gb|BI720163.1|BI720163
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|10770445|gb|AV621270.1|AV621270
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|161805608|gb|FC090664.1|FC090664
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|161809128|gb|FC095158.1|FC095158
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|161815387|gb|FC100995.1|FC100995
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|22072778|gb|BQ822116.1|BQ822116
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|161806010|gb|FC089532.1|FC089532
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|161814224|gb|FC103693.1|FC103693
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|10127547|gb|BE726251.1|BE726251
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|161818020|gb|FC102233.1|FC102233
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|22048539|gb|BQ808254.1|BQ808254
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|22048534|gb|BQ808253.1|BQ808253
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|161812112|gb|FC098291.1|FC098291
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|10777286|gb|AV633966.1|AV633966
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|34990381|gb|CF564298.1|CF564298
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|10770240|gb|AV621065.1|AV621065
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
EST: gi|161805580|gb|FC090636.1|FC090636
EST:     GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCG                         GCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT
genomic: GGCGCAAATCACTCCGGAGGTCGTGCTTTCCTACACAAAACCAGCAAGCGgtgaggaggt ... ccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcggctctgctgggctcgaacatgggcttactctcggttctgtgccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGTTCGAGATCAAGGAGTATGACACCAACACCGTCGTGTACCAG
                         ggcttac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaggaggtctcgctggatcggctctgctgggctcgaacatgggcttactctcggttctgtgccctgcgaagGCTACCTGTGTCCCCTGAACGCGAACACCTTCGGGATAGAGTTCCTGAAGTTCGAGATCAAGGAGTATGACACCAACACCGTCGTGTACCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG