Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgcttggatagaactccccaccccccaacaacaccccagccggaaccatgcagctcggttgaccctgcaccgcggctcgtggtcctctcccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTGGAGTTCGAGGGCACCTGGGAGCTGCTGTACACCAACGCGGTGGAGCTGC

Basic information

species Chlamydomonas reinhardtii
transcript EDP04518
intron # 5
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|15694167|gb|BI718472.1|BI718472
EST:     GTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTG                         GTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
genomic: GTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTGgtgcgaggga ... cccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
EST: gi|15692659|gb|BI716964.1|BI716964
EST:     AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTG                         GTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
genomic: AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTGgtgcgaggga ... cccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
EST: gi|10127120|gb|BE725824.1|BE725824
EST:     AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTG                         GTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
genomic: AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTGgtgcgaggga ... cccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
EST: gi|10791897|gb|AV629263.1|AV629263
EST:     AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTG                         GTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
genomic: AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTGgtgcgaggga ... cccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
EST: gi|10778893|gb|AV635573.1|AV635573
EST:     AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTG                         GTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAG
genomic: AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTGgtgcgaggga ... cccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAG
EST: gi|23363546|gb|BU651366.1|BU651366
EST:     AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTG                         GTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
genomic: AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTGgtgcgaggga ... cccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
EST: gi|23367454|gb|BU655272.1|BU655272
EST:     AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTG                         GTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
genomic: AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTGgtgcgaggga ... cccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
EST: gi|49464379|gb|BP092292.1|BP092292
EST:     AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTG                         GTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
genomic: AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTGgtgcgaggga ... cccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
EST: gi|15691778|gb|BI716083.1|BI716083
EST:     AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTG                         GTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
genomic: AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTGgtgcgaggga ... cccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
EST: gi|23363980|gb|BU651800.1|BU651800
EST:     AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTG                         GTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
genomic: AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTGgtgcgaggga ... cccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
EST: gi|22067969|gb|BQ817952.1|BQ817952
EST:     GCGCGGCCTTGTGGCCCGCTCGGAGGT-CTGGGCCGAGATCAACGAGCTG                         GTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
genomic: GCGCGGCCTTGTGGCCCGCTCGGAGGTAC-GGGCCGAGATCAACGAGCTGgtgcgaggga ... cccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTG
EST: gi|7616248|gb|AW721688.1|AW721688
EST:     AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTG                         GTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGT
genomic: AGCGCGGCCTTGTGGCCCGCTCGGAGGTACGGGCCGAGATCAACGAGCTGgtgcgaggga ... cccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaccatgcagctcggttgaccctgcaccgcggctcgtggtcctctcccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTGGAGTTCGAGGGCACCTGGGAGCTGCTGTACACCAACGCGGTGGAGCTGC
             ggttgac  putative branch site (score: 4)
                                       tcctctcccgtcgc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtgcttggatagaactccccaccccccaacaacaccccagccggaaccatgcagctcggttgaccctgcaccgcggctcgtggtcctctcccgtcgcagGTGAACCAGCTGGAGGTGCAGGGCGGGCAGGGCGCGGACGTGGCCAGCCTGGAGTTCGAGGGCACCTGGGAGCTGCTGTACACCAACGCGGTGGAGCTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
tgtgctt
- - - - - - -aactccc
- - - - - - - - - - caccccc
- - - - - - - - - - - - - - aacaaca
- - - - - - - - - - - - - - - - - - - - - - - -ccatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgcac