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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggaggcatggggaggaggagggaaggacggaggggctgcttggcgcgcataaggccgcatacggagggcctttgcttgtaggctctggtaggcccaccttccgccgcggcccgcgctatgtatccacttcgccccactactggctcttcctctttcaatgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTCAAGCCCAACCCCAAGAGCCACATCCAGGAGGCCTGGCGCATTATGGACT

Basic information

species Chlamydomonas reinhardtii
transcript EDP00871
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EDP00871 (Chlamydomonas reinhardtii), 3'ss of exon 5
lower sequence: PP1S422_8V6.3 (Physcomitrella patens), 3'ss of exon 2
gtgaggaggcatggggaggaggagggaaggacggaggggctgcttggcgcgcataaggccgcatacggagggcctttgcttgtaggctctggtaggcccaccttccgccgcggcccgcgctatgtatccacttcgccccactactggctcttcctctttcaatgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTCAAGCCCAACCCCAAGAGCCACATCCAGGAGGCCTGGCGCATTATGGACT---------------------------
                                                                                                     | | ||         | |  | | ||  |||| |    |      | |  | ||   ||| | |    ||     | || ||   | |  |  || ||||||| |||||| | |||||||| ||||| ||||| ||||| |||||||||||||| ||||| || |||||||                           
-------------------------------------------------------------------------------------------------gtttcatacgatagaagaagtgacaagcata-acttagggtgatatgatgatgctactggatcatttcggatcactaaatattgatat-caattgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAGGAGGCATGGCGAATAATGGACTTTTTCTCGCACGTTCCCGAATCCTGCA

upper sequence: EDP00871 (Chlamydomonas reinhardtii), 3'ss of exon 5
lower sequence: PP1S3_353V6.2 (Physcomitrella patens), 3'ss of exon 4
gtgaggaggcatggggaggaggagggaaggacggaggggctgcttggcgcgcataaggccgcatacggagggcctttgcttgtaggctctggtaggcccaccttccgccgcggcccgcgctatgtatccacttcgccccactactggctcttcctctttcaatgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTCAAGCCCAACCCCAAGAGCCACATCCAGGAGGCCTGGCGCATTATGGACT---------------------------
                                                                                           | |  |     ||  ||    |   ||||| || | | | |   | |  ||| ||  | ||||   |||  |   |    ||||   ||  |           |  ||||||| || ||| |||||||||| ||||| ||||||||||| ||||| |||||| | ||||| |||||||| |                           
------------------------------------------------------------------------------------------tgaacacatgaattaagcttaagttggcgct-tggagctagtatcctcacctagtga-ttttccgtcttcgttatattgatggtgactttgtttt-------tgtacagTTCCCTGATATGATTCACGCCTTGAAGCCGAACCCCAAGAGTCACATTCAGGAGCCATGGCGTATTATGGATTTCTTCTCGCATGTCCCTGAGGCCTGCA
















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|22068250|gb|BQ818189.1|BQ818189
EST:     AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACA-CATGCCG                         GTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACA
genomic: AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCGgtgaggaggc ... tgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACA
EST: gi|7687778|gb|AW758424.1|AW758424
EST:     AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCG                         GTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
genomic: AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCGgtgaggaggc ... tgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
EST: gi|15697484|gb|BI721789.1|BI721789
EST:     AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCG                         GAGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCCTT
genomic: AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCGgtgaggaggc ... tgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCC-TT
EST: gi|22069902|gb|BQ819380.1|BQ819380
EST:     AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCG                         GTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
genomic: AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCGgtgaggaggc ... tgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
EST: gi|23361192|gb|BU649012.1|BU649012
EST:     AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCG                         GTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
genomic: AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCGgtgaggaggc ... tgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
EST: gi|14240802|gb|BG859618.1|BG859618
EST:     AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCG                         GTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
genomic: AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCGgtgaggaggc ... tgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
EST: gi|6547218|gb|AV393002.1|AV393002
EST:     AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCG                         GTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
genomic: AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCGgtgaggaggc ... tgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
EST: gi|15691958|gb|BI716263.1|BI716263
EST:     AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCG                         GTGTTCTTCATCCGCGACGGCATG
genomic: AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCGgtgaggaggc ... tgcttgccagGTGTTCTTCATCCGCGACGGCATG
EST: gi|22064859|gb|BQ816064.1|BQ816064
EST:     AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCG                         GTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
genomic: AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCGgtgaggaggc ... tgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
EST: gi|34985582|gb|CF559499.1|CF559499
EST:     AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCG                         GTGTTCTTCATCCGCG
genomic: AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCGgtgaggaggc ... tgcttgccagGTGTTCTTCATCCGCG
EST: gi|14239601|gb|BG858417.1|BG858417
EST:     AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCG                         GTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
genomic: AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCGgtgaggaggc ... tgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
EST: gi|34986788|gb|CF560705.1|CF560705
EST:     -GTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACCACATGCCG                         GTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATG
genomic: AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCGgtgaggaggc ... tgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATG
EST: gi|14227441|gb|BG846257.1|BG846257
EST:     GTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGGCCG                         -TGTTCTTTATCC-CGGACGGCATGGAGTTCCCGGGCATGGGCTCACGCC
genomic: GTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATG-CCGgtgaggaggc ... tgcttgccagGTGTTCTTCATCCGCG-ACGGCATGAAGTTCCCGGACATGGT-TCACGCC
EST: gi|22076101|gb|BQ824877.1|BQ824877
EST:     AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCG                         GTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC
genomic: AGTTCTACACACGTGAGGGCAATTTCGACATGGTCGGCAACAACATGCCGgtgaggaggc ... tgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgctatgtatccacttcgccccactactggctcttcctctttcaatgcttgccagGTGTTCTTCATCCGCGACGGCATGAAGTTCCCGGACATGGTTCACGCCTTCAAGCCCAACCCCAAGAGCCACATCCAGGAGGCCTGGCGCATTATGGACT
                              ctcttcctctttcaat  CT-rich tract
                                       tttcaat  TA-rich tract