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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgactgtttgccatattttgaacgtcctgcccgaaggaactggcccacattcggcttacccaagcgaccacacacgctcgccgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTGCTGCATCTGGAACACCTGTGCCGAAGAACAGCATCCTGGTTGTCGGAGC

Basic information

species Chlamydomonas reinhardtii
transcript EDO98046
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|15367687|gb|BI527113.1|BI527113
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
EST: gi|14237765|gb|BG856581.1|BG856581
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCT
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAG-CCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCT
EST: gi|14240632|gb|BG859448.1|BG859448
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGGCTGCGGCT
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCC-GCTGCGGCT
EST: gi|22074089|gb|BQ823292.1|BQ823292
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
EST: gi|22059343|gb|BQ813385.1|BQ813385
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
EST: gi|15372908|gb|BI532334.1|BI532334
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
EST: gi|7593489|gb|AW707740.1|AW707740
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
EST: gi|22065979|gb|BQ816678.1|BQ816678
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
EST: gi|22065986|gb|BQ816683.1|BQ816683
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
EST: gi|49464537|gb|BP092450.1|BP092450
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
EST: gi|8513586|gb|BE121481.1|BE121481
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
EST: gi|10782148|gb|AV638828.1|AV638828
EST:     TGGCCTGGCGCCAGGGGCGTTGTTGCGTTCTTGGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: TGGCCTTGCGCCA-GGGCGTTGTTGCGTTCTT-GCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
EST: gi|49464844|gb|BP092757.1|BP092757
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
EST: gi|161817687|gb|FC099976.1|FC099976
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
EST: gi|10782000|gb|AV638680.1|AV638680
EST:     CCTGGCCTTGCGCCA-GGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
EST: gi|10127782|gb|BE726486.1|BE726486
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
EST: gi|7615363|gb|AW720809.1|AW720809
EST:     CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAG                         TGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG
genomic: CCTGGCCTTGCGCCAGGGCGTTGTTGCGTTCTTGCCTGTGCGTGCTCCAGgtgcgactgt ... cgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaactggcccacattcggcttacccaagcgaccacacacgctcgccgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTGCTGCATCTGGAACACCTGTGCCGAAGAACAGCATCCTGGTTGTCGGAGC
                ggcttac  putative branch site (score: 3)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgactgtttgccatattttgaacgtcctgcccgaaggaactggcccacattcggcttacccaagcgaccacacacgctcgccgatgcgcagTGAGCCGCTCCACGCGCGTGCGCGTCTTTGCCAACGCGGCCGCTGCGGCTGCTGCATCTGGAACACCTGTGCCGAAGAACAGCATCCTGGTTGTCGGAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC