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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cggcctcgttccgccgcctccctgttgcatctccgggtgcatataccaggtttagccctgttcgacgcgttctccgttatatttgacatgtccctgacagGTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGCGATTATGGACCCCGCCTCGGGTGACCAGCCCCTGTTCAACGAGGACCGC

Basic information

species Chlamydomonas reinhardtii
transcript EDO97202
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|10784267|gb|AV640939.1|AV640939
EST:     TCGAGGGTGCTGGCCCTGAGCCGTCGCCAGCGTCACCGTGGCCCCGACTG                         GTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
genomic: TCGAGGGTGCTGGCCCTGAGCCGTCGCCAGCGTCACCGTGGCCCCGACTGgtaagcgtgg ... tccctgacagGTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
EST: gi|49461988|gb|BP089901.1|BP089901
EST:     TCGAGGGTGCTGGCCCTGAGCCGTCGCCAGCGTCACCGTGGCCCCGACTG                         GTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
genomic: TCGAGGGTGCTGGCCCTGAGCCGTCGCCAGCGTCACCGTGGCCCCGACTGgtaagcgtgg ... tccctgacagGTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
EST: gi|15367693|gb|BI527119.1|BI527119
EST:     TCGAGGGTGCTGGCCCTGAGCCGTCGCCAGCGTCACCGTGGCCCCGACTG                         GTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
genomic: TCGAGGGTGCTGGCCCTGAGCCGTCGCCAGCGTCACCGTGGCCCCGACTGgtaagcgtgg ... tccctgacagGTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
EST: gi|15695274|gb|BI719579.1|BI719579
EST:     TCGAGGGTGCTGGCCCTGAGCCGTCGCCAGCGTCACCGTGGCCCCGACTG                         GTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
genomic: TCGAGGGTGCTGGCCCTGAGCCGTCGCCAGCGTCACCGTGGCCCCGACTGgtaagcgtgg ... tccctgacagGTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
EST: gi|22063923|gb|BQ815506.1|BQ815506
EST:     TCGTGGGTGCTGGCCCTGAGCCGTCGCCAGCGTCACCGTGGCCCCGACTG                         GTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
genomic: TCGAGGGTGCTGGCCCTGAGCCGTCGCCAGCGTCACCGTGGCCCCGACTGgtaagcgtgg ... tccctgacagGTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
EST: gi|10786249|gb|AV642921.1|AV642921
EST:     TCGAGGGTGCTGGCCCTGAGCCGTCGCCAGCGTCACCGTGGCCCCGACTG                         GTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
genomic: TCGAGGGTGCTGGCCCTGAGCCGTCGCCAGCGTCACCGTGGCCCCGACTGgtaagcgtgg ... tccctgacagGTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
EST: gi|16072104|gb|BI874100.1|BI874100
EST:     CGAGGGTGCTGGCCCTGAGCCGTCGCCAGCGGTCACCGTGGCCCCGACTG                         GTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
genomic: CGAGGGTGCTGGCCCTGAGCCGTCGCCAGC-GTCACCGTGGCCCCGACTGgtaagcgtgg ... tccctgacagGTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
EST: gi|49468484|gb|BP096345.1|BP096345
EST:     TCGAGGGTGCTGGCCCTGAGCCGTCGCCAGCGTCACCGTGGCCCCGACTG                         GTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC
genomic: TCGAGGGTGCTGGCCCTGAGCCGTCGCCAGCGTCACCGTGGCCCCGACTGgtaagcgtgg ... tccctgacagGTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaggtttagccctgttcgacgcgttctccgttatatttgacatgtccctgacagGTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGCGATTATGGACCCCGCCTCGGGTGACCAGCCCCTGTTCAACGAGGACCGC
                                   atttgac  putative branch site (score: 4)
                                           tgtccct  CT-rich tract
                               ttatatttga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cggcctcgttccgccgcctccctgttgcatctccgggtgcatataccaggtttagccctgttcgacgcgttctccgttatatttgacatgtccctgacagGTCTGGCATGCACCAGTTCGGCAACAACTTCCTTGCCCATGAGCGCCTTGCGATTATGGACCCCGCCTCGGGTGACCAGCCCCTGTTCAACGAGGACCGC

- - - - - - - - - - - - - - - - - - - - atatacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atatttg