Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ctcccacgcaggcgggcttagcattcaagcacttctggcacacaatgttttgattccgacttgatctaatggccctgcaggaccgtGCTTACAACTCAAAGGCAAAGATGCTGATTTACGGTGGCGACGAGCGTCCGGATACGCCGCAGCACATCGGCAAGAAGA

Basic information

species Chlamydomonas reinhardtii
transcript EDP01014
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|10771438|gb|AV622261.1|AV622261
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|6541420|gb|AV387204.1|AV387204
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|22049247|gb|BQ808682.1|BQ808682
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|16072805|gb|BI874801.1|BI874801
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|6545677|gb|AV391461.1|AV391461
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|15699394|gb|BI723699.1|BI723699
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|6547330|gb|AV393114.1|AV393114
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|9459947|gb|BE452988.1|BE452988
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|15703513|gb|BI727818.1|BI727818
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|6551764|gb|AV397548.1|AV397548
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|22049248|gb|BQ808683.1|BQ808683
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10770536|gb|AV621361.1|AV621361
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|15702070|gb|BI726375.1|BI726375
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10772320|gb|AV623143.1|AV623143
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10768240|gb|AV619065.1|AV619065
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10127282|gb|BE725986.1|BE725986
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10768505|gb|AV619330.1|AV619330
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|22075401|gb|BQ824177.1|BQ824177
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|22068374|gb|BQ818313.1|BQ818313
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|22074620|gb|BQ823544.1|BQ823544
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10775158|gb|AV625981.1|AV625981
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|15367881|gb|BI527307.1|BI527307
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10771495|gb|AV622318.1|AV622318
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10774206|gb|AV625029.1|AV625029
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10778324|gb|AV635004.1|AV635004
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|9210852|gb|BE337767.1|BE337767
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10772660|gb|AV623483.1|AV623483
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|22069490|gb|BQ819062.1|BQ819062
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10781137|gb|AV637817.1|AV637817
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|49462901|gb|BP090814.1|BP090814
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|49460070|gb|BP087983.1|BP087983
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|15371920|gb|BI531346.1|BI531346
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10774553|gb|AV625376.1|AV625376
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10786290|gb|AV642962.1|AV642962
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10780041|gb|AV636721.1|AV636721
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10779383|gb|AV636063.1|AV636063
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|9210722|gb|BE337637.1|BE337637
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|22054373|gb|BQ811326.1|BQ811326
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|23360809|gb|BU648629.1|BU648629
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10782783|gb|AV639455.1|AV639455
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|15699392|gb|BI723697.1|BI723697
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|49460858|gb|BP088771.1|BP088771
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|22068376|gb|BQ818315.1|BQ818315
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10774359|gb|AV625182.1|AV625182
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|6544390|gb|AV390174.1|AV390174
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|15699393|gb|BI723698.1|BI723698
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|14226094|gb|BG844910.1|BG844910
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10779865|gb|AV636545.1|AV636545
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|49458936|gb|BP086849.1|BP086849
EST:     ACCTACAAGGACAATCAGGACCGTG                         GCTTACAACTCAAAGGCAAAGATGCTGATTTACGGTGGCGACGAGCGTCC
genomic: ACCTACAAGGACAATCAGGACCG-Cctcccacgca ... gcaggaccgtGCTTACAACTCAAAGGCAAAGATGCTGATTTACGGTGGCGACGAGCGTCC
EST: gi|10779845|gb|AV636525.1|AV636525
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|6542757|gb|AV388541.1|AV388541
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|6540887|gb|AV386671.1|AV386671
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|6547142|gb|AV392926.1|AV392926
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10127537|gb|BE726241.1|BE726241
EST:     ACAAGGACAATCAGGACCGC
genomic: ACAAGGACAATCAGGACCGC
EST: gi|22059526|gb|BQ813480.1|BQ813480
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|14240430|gb|BG859246.1|BG859246
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC
EST: gi|10779351|gb|AV636031.1|AV636031
EST:     ACAAGGACAATCAGGACCGT
genomic: ACAAGGACAATCAGGACCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttctggcacacaatgttttgattccgacttgatctaatggccctgcaggaccgtGCTTACAACTCAAAGGCAAAGATGCTGATTTACGGTGGCGACGAGCGTCCGGATACGCCGCAGCACATCGGCAAGAAGA
                                atctaat  putative branch site (score: 3)
            aatgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctcccacgcaggcgggcttagcattcaagcacttctggcacacaatgttttgattccgacttgatctaatggccctgcaggaccgtGCTTACAACTCAAAGGCAAAGATGCTGATTTACGGTGGCGACGAGCGTCCGGATACGCCGCAGCACATCGGCAAGAAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG