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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtcggcggagggacggctgtgggcgctggggatcgagcctgggcgacggcctccagttgggctggcttgggatagcaataggtcatgacaatatgaaatgaagtggatgaggaccgagtgtgctcattttagcgcgagggcgtgtttgtccgccgtcttgaggcttctgccggcgcaatccctgcccacagACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTGCTATCCACAGCCGCGTTGTGCGCGTCCGCAACGCCAAGGAGCGCCGGAA

Basic information

species Chlamydomonas reinhardtii
transcript EDP04391
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|6543817|gb|AV389601.1|AV389601
EST:     TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACA                         ACTACGCCCTG
genomic: TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACAgtgagtcggc ... ctgcccacagACTACGCCCTG
EST: gi|34989385|gb|CF563302.1|CF563302
EST:     TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACA                         ACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
genomic: TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACAgtgagtcggc ... ctgcccacagACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
EST: gi|34983987|gb|CF557904.1|CF557904
EST:     TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACA                         ACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
genomic: TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACAgtgagtcggc ... ctgcccacagACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
EST: gi|7545949|gb|AW676437.1|AW676437
EST:     TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACA                         ACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGGATCAGCGCTG
genomic: TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACAgtgagtcggc ... ctgcccacagACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
EST: gi|6551542|gb|AV397326.1|AV397326
EST:     TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACA                         ACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
genomic: TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACAgtgagtcggc ... ctgcccacagACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
EST: gi|10788487|gb|AV626207.1|AV626207
EST:     TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACA                         ACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
genomic: TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACAgtgagtcggc ... ctgcccacagACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
EST: gi|34990226|gb|CF564143.1|CF564143
EST:     TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACA                         ACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
genomic: TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACAgtgagtcggc ... ctgcccacagACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
EST: gi|10788602|gb|AV626322.1|AV626322
EST:     TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACA                         ACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
genomic: TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACAgtgagtcggc ... ctgcccacagACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
EST: gi|34989138|gb|CF563055.1|CF563055
EST:     TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACA                         ACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
genomic: TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACAgtgagtcggc ... ctgcccacagACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
EST: gi|10790371|gb|AV627737.1|AV627737
EST:     TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACA                         ACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
genomic: TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACAgtgagtcggc ... ctgcccacagACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
EST: gi|6544029|gb|AV389813.1|AV389813
EST:     TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACA                         ACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
genomic: TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACAgtgagtcggc ... ctgcccacagACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTG
EST: gi|34988847|gb|CF562764.1|CF562764
EST:     TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACA                         ACTACACCCTGCCCAAGATTTACCGCAAGGTGTACTAC
genomic: TGTGGACGCGTCGGCTCTCCGCGACATGCAGGAGGCTTGCGTCGTCGACAgtgagtcggc ... ctgcccacagACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agggcgtgtttgtccgccgtcttgaggcttctgccggcgcaatccctgcccacagACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTGCTATCCACAGCCGCGTTGTGCGCGTCCGCAACGCCAAGGAGCGCCGGAA
                                          tccctgccc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtcggcggagggacggctgtgggcgctggggatcgagcctgggcgacggcctccagttgggctggcttgggatagcaataggtcatgacaatatgaaatgaagtggatgaggaccgagtgtgctcattttagcgcgagggcgtgtttgtccgccgtcttgaggcttctgccggcgcaatccctgcccacagACTACGCCCTGCCCAAGATTTACCGCAAGGTGTACTACAGCATCAGCGCTGCTATCCACAGCCGCGTTGTGCGCGTCCGCAACGCCAAGGAGCGCCGGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG