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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccgctcgtcgggtcggcggtactttgtctgtgcagcgctgcgccatgttaatgtggccgcgctccaactagtcatgcctgcaatccttgcaaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACCATGCGCGAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP06728
intron # 3
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|7615357|gb|AW720803.1|AW720803
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|22063534|gb|BQ815265.1|BQ815265
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|10768806|gb|AV619631.1|AV619631
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGACCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCA
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCA
EST: gi|161814815|gb|FC100657.1|FC100657
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|22072634|gb|BQ821972.1|BQ821972
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|22050250|gb|BQ809141.1|BQ809141
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|22068051|gb|BQ818019.1|BQ818019
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|22055652|gb|BQ811951.1|BQ811951
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|22050251|gb|BQ809142.1|BQ809142
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACA
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACA
EST: gi|10780162|gb|AV636842.1|AV636842
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGC
EST: gi|15696927|gb|BI721232.1|BI721232
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGT
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGT
EST: gi|15369591|gb|BI529017.1|BI529017
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|161821633|gb|FC108134.1|FC108134
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|22067190|gb|BQ817392.1|BQ817392
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|22064606|gb|BQ815890.1|BQ815890
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|22070334|gb|BQ819715.1|BQ819715
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|22073537|gb|BQ822875.1|BQ822875
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|22074365|gb|BQ823420.1|BQ823420
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|23364284|gb|BU652104.1|BU652104
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|161801894|gb|FC090730.1|FC090730
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
EST: gi|22071207|gb|BQ820545.1|BQ820545
EST:     GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAG                         GAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC
genomic: GCACGCTCGGCACCGACTACGCGGAGCGCGTGCTGCCCTCCATCATCCAGgtgagctttc ... aaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttaatgtggccgcgctccaactagtcatgcctgcaatccttgcaaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACCATGCGCGAG
 tgttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccgctcgtcgggtcggcggtactttgtctgtgcagcgctgcgccatgttaatgtggccgcgctccaactagtcatgcctgcaatccttgcaaacacgcagGAGACGCTCAAGTCGGTCATTGCGCAGTACAACGCCAGCCAGCTCATCACCATGCGCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - tgtctgt
- - - - - - - - - - - - - - - - - - - - - - - -ttaatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgcct