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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcagggagggccacacgaaagaggcgtattaacgtagcagtagttttgggtagtctggtatgatcttttgggcgtttggcacggccaaggcgcagtttgcgctgggcgactactcagtgtgtgggactttgccggtctcagtgtggtgaccacgcccgaccaatttgtgaccacagCTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTATCGGGATGACTCGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGC

Basic information

species Chlamydomonas reinhardtii
transcript EDO97463
intron # 2
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|15701197|gb|BI725502.1|BI725502
EST:     GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAA                         CTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA
genomic: GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAAgtgagcaggg ... gtgaccacagCTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA
EST: gi|161805161|gb|FC089242.1|FC089242
EST:     GACTCCACCGTGCTGGCCCACATTATGAGCACGCTCAACGCGCGATACAA                         CTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGAATCACCGGGTA
genomic: GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAAgtgagcaggg ... gtgaccacagCTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA
EST: gi|15699525|gb|BI723830.1|BI723830
EST:     GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAA                         CTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA
genomic: GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAAgtgagcaggg ... gtgaccacagCTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA
EST: gi|16072208|gb|BI874204.1|BI874204
EST:     GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAA                         CTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA
genomic: GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAAgtgagcaggg ... gtgaccacagCTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA
EST: gi|15699523|gb|BI723828.1|BI723828
EST:     GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAA                         CTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA
genomic: GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAAgtgagcaggg ... gtgaccacagCTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA
EST: gi|15699524|gb|BI723829.1|BI723829
EST:     GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAA                         CTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA
genomic: GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAAgtgagcaggg ... gtgaccacagCTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA
EST: gi|14239268|gb|BG858084.1|BG858084
EST:     GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAA                         CTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA
genomic: GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAAgtgagcaggg ... gtgaccacagCTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA
EST: gi|14229546|gb|BG848362.1|BG848362
EST:     GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAA                         CTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA
genomic: GACTCCACCGTGCTGGCCCATATTATGAGCACGCTCAACGCGCGATACAAgtgagcaggg ... gtgaccacagCTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgggactttgccggtctcagtgtggtgaccacgcccgaccaatttgtgaccacagCTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTATCGGGATGACTCGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGC
                                        aatttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagcagggagggccacacgaaagaggcgtattaacgtagcagtagttttgggtagtctggtatgatcttttgggcgtttggcacggccaaggcgcagtttgcgctgggcgactactcagtgtgtgggactttgccggtctcagtgtggtgaccacgcccgaccaatttgtgaccacagCTACGGATTGGACCTATTCCTACTGTCCATTGACGAGGGCATCACCGGGTATCGGGATGACTCGCTGGAGACGGTCAAGCGCAACGAGCAGCAGTACGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG