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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggctggtcagtcggctgtgtcctgcgccagaatacctcaccaccctcgctctggcactggcactgaccctgtgcccccgctctctttctgcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTCCTCCCTGGTTGAGGACGACAAGATCGAGCTGGCCAAGAAGCTGGAGGAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98586
intron # 6
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|161823510|gb|FC108510.1|FC108510
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACANGGCCCGCGG
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGG
EST: gi|16431012|gb|BI996238.1|BI996238
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|10778626|gb|AV635306.1|AV635306
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161791377|gb|FC077974.1|FC077974
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161816099|gb|FC103794.1|FC103794
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161795111|gb|FC078255.1|FC078255
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161806004|gb|FC089526.1|FC089526
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|22062636|gb|BQ814877.1|BQ814877
EST:     CACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: CACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161808945|gb|FC094390.1|FC094390
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161808380|gb|FC098453.1|FC098453
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161815736|gb|FC101851.1|FC101851
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161797540|gb|FC086028.1|FC086028
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161803417|gb|FC093046.1|FC093046
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161792900|gb|FC082154.1|FC082154
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161812927|gb|FC095129.1|FC095129
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161822387|gb|FC106808.1|FC106808
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|9028128|gb|BE238168.1|BE238168
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161810630|gb|FC094209.1|FC094209
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161808389|gb|FC098462.1|FC098462
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161792854|gb|FC082108.1|FC082108
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161791664|gb|FC078299.1|FC078299
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161813926|gb|FC104552.1|FC104552
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAG
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAG
EST: gi|49459990|gb|BP087903.1|BP087903
EST:     GAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: GAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161802603|gb|FC089099.1|FC089099
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161795396|gb|FC078553.1|FC078553
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161814693|gb|FC102394.1|FC102394
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|7686923|gb|AW757571.1|AW757571
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|9441323|gb|BE441686.1|BE441686
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161801398|gb|FC088518.1|FC088518
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|15371560|gb|BI530986.1|BI530986
EST:     AGATCAT-ATCGG                         CGGTGG-ATGATCTT-ACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: AGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|15373411|gb|BI532837.1|BI532837
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161817186|gb|FC101594.1|FC101594
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
EST: gi|161823089|gb|FC107387.1|FC107387
EST:     ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGG                         CGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC
genomic: ATCACCGTCATTGAGGCGCTGATGGAGAAGTGCGACAAGATCATCATCGGgtgagttagt ... gcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcgctctggcactggcactgaccctgtgcccccgctctctttctgcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTCCTCCCTGGTTGAGGACGACAAGATCGAGCTGGCCAAGAAGCTGGAGGAG
                cactgac  putative branch site (score: 2)
                      ccctgtgcccccgctc  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggctggtcagtcggctgtgtcctgcgccagaatacctcaccaccctcgctctggcactggcactgaccctgtgcccccgctctctttctgcccccgcagCGGTGGCATGATCTTCACCTTCTACAAGGCCCGCGGCCTGAAGGTGGGCTCCTCCCTGGTTGAGGACGACAAGATCGAGCTGGCCAAGAAGCTGGAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - gctgtgt
- - - - - - - - - - - - - - - - - - - caccacc