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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGGAGGGCATCCTGGGCCTGTGGAAGGGTCTGGGCCCCAACATCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtgggagccaaagggagccggggatccggaaggccttcataccatagtgtggggcttgcgatcaccatggtggttatggggggcgccgtgccccgg...

Basic information

species Chlamydomonas reinhardtii
transcript EDP01675
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EDP01675 (Chlamydomonas reinhardtii), 5'ss of exon 7
lower sequence: EFJ35536 (Selaginella moellendorffii), 5'ss of exon 5
GGAGGAGGGCATCCTGGGCCTGTGGAAGGGTCTGGGCCCCAACATCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtgggagccaaagggagccggggatccggaaggccttca-taccatagtgtggggcttgcgatcaccatggtggttatggggggcgccgtgccccgg
    || ||  ||      || ||||  || ||||| || ||  | || |||||||| |||||||||||||||||||| || ||||| || || ||      |   |     |  |    | | ||    || | ||   |||||  ||  |  |                                        
----GAAGGTTTCGCAAAACTTTGGACTGGCCTGGGTCCAAATGTGGCCCGTAACGCTATCATCAACGCGGCCGAGCTCGCTAGCTATGATCAAGTAAAACAGgttcgtgtcggtc---agtttcgacgagcttccaactccataacgttcgtttcag-------------------------------------
















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|15367917|gb|BI527343.1|BI527343
EST:     TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAG                         ATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
genomic: TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtggga ... gtgccaccagATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
EST: gi|161819692|gb|FC110730.1|FC110730
EST:     TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAG                         ATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
genomic: TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtggga ... gtgccaccagATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
EST: gi|8513770|gb|BE121665.1|BE121665
EST:     TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAG                         ATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
genomic: TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtggga ... gtgccaccagATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
EST: gi|14235024|gb|BG853840.1|BG853840
EST:     TCGCGCGTAACGCCATCATCAACGCGGGCGAGCTGGCCAGCTACGACCAG                         ATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAAACGTGG-CACGCA
genomic: TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtggga ... gtgccaccagATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAA-CGTGGGCACGCA
EST: gi|9210083|gb|BE336998.1|BE336998
EST:     TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAG                         ATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
genomic: TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtggga ... gtgccaccagATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
EST: gi|10127372|gb|BE726076.1|BE726076
EST:     TCGCGCGTAACGCCATCATCAACGCGGTCGAGCTGGCCAGCTACGACCAG                         ATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
genomic: TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtggga ... gtgccaccagATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
EST: gi|15705113|gb|BI729402.1|BI729402
EST:     TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAG                         ATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
genomic: TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtggga ... gtgccaccagATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
EST: gi|9210580|gb|BE337495.1|BE337495
EST:     TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAG                         ATCAAGCAGTCGCTA
genomic: TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtggga ... gtgccaccagATCAAGCAGTCGCTA
EST: gi|8400964|gb|BE056598.1|BE056598
EST:     TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAG                         ATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
genomic: TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtggga ... gtgccaccagATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
EST: gi|8933158|gb|BE227919.1|BE227919
EST:     TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAG                         ATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
genomic: TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtggga ... gtgccaccagATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
EST: gi|10125696|gb|BE724400.1|BE724400
EST:     TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAG                         ATCAAGCAGTCGCTACTGGGCATTGGCAT
genomic: TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtggga ... gtgccaccagATCAAGCAGTCGCTACTGGGCATTGGCAT
EST: gi|15373603|gb|BI533029.1|BI533029
EST:     TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAG                         ATCAAGCAGTCGCTACTGGGCATT
genomic: TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtggga ... gtgccaccagATCAAGCAGTCGCTACTGGGCATT
EST: gi|161812247|gb|FC097815.1|FC097815
EST:     TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAG                         ATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGNGCACGCAC
genomic: TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtggga ... gtgccaccagATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
EST: gi|161810681|gb|FC096834.1|FC096834
EST:     TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAG                         ATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC
genomic: TCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtggga ... gtgccaccagATCAAGCAGTCGCTACTGGGCATTGGCATGAAGGACAACGTGGGCACGCAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAGGAGGGCATCCTGGGCCTGTGGAAGGGTCTGGGCCCCAACATCGCGCGTAACGCCATCATCAACGCGGCCGAGCTGGCCAGCTACGACCAGgtgcgtgggagccaaagggagccggggatccggaaggccttcataccatagtgtggggcttgcgatcaccatggtggttatggggggcgccgtgccccgg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agccaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atagtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atcacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggttat