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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgcctgctacggggcttctatttccttccccctctccacctgcacacgcaggcctgcctccattgcagcatgcctacagcctgtccatgcatcactctaaccgcacttggcacgtaaatggctctggtttggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAGGCGGTGGGCAGCGTCATGACCAACAAGTACAGCGAGGGCTACCCCGGCG

Basic information

species Chlamydomonas reinhardtii
transcript EDO97448
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EDO97448 (Chlamydomonas reinhardtii), 3'ss of exon 4
lower sequence: LOC_Os03g52840.2 (Oryza sativa), 3'ss of exon 3
gtgcgcctgctacggggcttctatttccttccccctctccacctgcacacgcaggcctgcctccattgcagcatgcctacagcctgtccatgcatcactctaaccgcacttggcacgtaaatggctctggtttggcca-tacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAGGCGGTGGGCAGCGTCATGACCAACAAGTACAGCGAGGGCTACCCCGGCG
                                                |  |||  |  || |||    |  | |      |  ||| ||    |   || | |  | | | ||   | ||| |      | ||     | ||||| |||||||| ||||| ||||||||||||   || |  || |||||| ||||||||||   ||||||||||||||||||||||||||| ||||||||||
----------------------------------------------gtaaccag--caaccaccaaaaaaaaa-gtgcgtggattgttcagtgtttggtccaccgacgcattgc---tgaattgtggcaatctgtttggtgcagGGTCTGGAGCTCATCCCGTCGGAGAACTTCACCTCGGTGTCAGTGATGCAGGCGGTGGGATCCGTCATGACCAACAAGTACAGCGAGGGGTACCCCGGCG

upper sequence: EDO97448 (Chlamydomonas reinhardtii), 3'ss of exon 4
lower sequence: GRMZM2G135283_T01 (Zea mays), 3'ss of exon 3
gtgcgcctgctacggggcttctatttcctt-ccccctctccacctgcacacgcaggcctgcctccattgcagcat--gcctacagc-ctgtccatgcatcactctaaccgcacttggcac-gtaaatggctctg-gtttggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAGGCGGTGGGCAGCGTCATGACCAACAAGTACAGCGAGGGCTACCCCGGCG
|| |   |       | | ||| || |  | |   ||||   |   ||    ||   || |   |||||     |  |  || |    | |   |   |  |    |||  |||  |  | ||   || |  || || |||     ||||| |||||||| ||||| |||||||| |||  ||| |  || |||||| |||| |||||   ||||||||||||||||||||||||||| ||||| ||||
gtccctgtttcttcagtcatcttttcctatacgtactcttttcagtcatttccacttctccagtcattgttttgttggattatattattatttgtttttttccaagaccctactgagttctgtccgtgtcaatgcgtctggtgg--cagGGTCTGGAGCTCATCCCGTCGGAGAATTTCACGTCGGTGTCAGTGATGCAGGCAGTGGGTTCCGTCATGACCAACAAGTACAGCGAGGGGTACCCTGGCG

upper sequence: EDO97448 (Chlamydomonas reinhardtii), 3'ss of exon 4
lower sequence: PP1S21_270V6.1 (Physcomitrella patens), 3'ss of exon 3
-----------------gtgcgcctgc-tacggggcttctatttccttcccc-----ctctccacctgcacacgcaggcctgcctccattgcagcatgcctacagcctgtccatgc------atcactctaaccgcacttggcacgta--aatggctctggtttggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAGGCGGTGGGCAGCGTCATGACCAACAAGTACAGCGAGGGCTACCCCGGCG
                  || |  |   |  || | || |||    ||   |     |  | | | | |||  | |   || ||   ||   | | ||     || |||| |   |      || ||| |   |   ||||    ||   ||      | | ||  |  |  |||| |||||| ||||||| || || ||||||   ||   ||| || ||| |||| |||||    |||||||||||||||||||| ||||| |||||||| |
gtttgaagttcgtttccttgtgtttttatctggtgtttttatcatgtttatcacgtgccttgccctttcactagtatttctaccaaaatattaacttgttagaagactgtacggactcgtcaattactttctactaccttgaattgttgtaacacgaattgcttttctgtgtagGGTCTGGAGTTGATCCCATCAGAAAACTTCACCTCCCTCTCAGTTATGCAGGCAGTGGGGTCAGTCATGACCAACAAGTACAGTGAGGGTTACCCCGGGG

upper sequence: EDO97448 (Chlamydomonas reinhardtii), 3'ss of exon 4
lower sequence: EFJ32604 (Selaginella moellendorffii), 3'ss of exon 3
gtgcgcctgctacggggcttctatttccttccccctctccacctgcacacgcaggcctgcctccattgcagcatgcctacagcctgtccatgcatcactctaaccgcacttggcacgtaaatggctctggtttggccatac-agGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAGGCGGTGGGCAGCGTCATGACCAACAAGTACAGCGAGGGCTACCCCGGCG
                                                                                          |   | | | |  |   || | | | | ||    || ||| |  |   ||| |||| |||||||| || ||||||||||| ||    ||  | || || ||| | || |||||   | |||||||||||||||| ||||||||||| || || |
-----------------------------------------------------------------------------------------gttggtaaatttcgctatacatagaaggaaa----ctttggatctgttttaccagGGACTGGAGCTAATTCCCTCGGAGAATTTTACTTCAACTTCAGTCATGCAAGCAGTGGGATCCATCATGACCAACAAGTATAGCGAGGGCTATCCAGGAG

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|10781349|gb|AV638029.1|AV638029
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|10126110|gb|BE724814.1|BE724814
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|49463440|gb|BP091353.1|BP091353
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|10126090|gb|BE724794.1|BE724794
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|6550255|gb|AV396039.1|AV396039
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAACTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|10788776|gb|AV626496.1|AV626496
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|10126692|gb|BE725412.1|BE725412
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|6543230|gb|AV389014.1|AV389014
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAA
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|10784593|gb|AV641265.1|AV641265
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|15698243|gb|BI722548.1|BI722548
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|10792084|gb|AV629450.1|AV629450
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|10127493|gb|BE726197.1|BE726197
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|23363367|gb|BU651187.1|BU651187
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|10793828|gb|AV631194.1|AV631194
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|49469449|gb|BP097310.1|BP097310
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|8286884|gb|BE024443.1|BE024443
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|10769315|gb|AV620140.1|AV620140
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|10790498|gb|AV627864.1|AV627864
EST:     GAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: GAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|10792385|gb|AV629751.1|AV629751
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|10793783|gb|AV631149.1|AV631149
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|49470468|gb|BP098329.1|BP098329
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|10771492|gb|AV622315.1|AV622315
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
EST: gi|10792252|gb|AV629618.1|AV629618
EST:     ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAG                         GGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG
genomic: ACCCAGATCTCTTCGACATCATTGAGAAGGAGAAGAACCGCCAGTTCAAGgtgcgcctgc ... ggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catgcatcactctaaccgcacttggcacgtaaatggctctggtttggccatacagGGCCTGGAGCTGATCCCCTCGGAGAACTTCGTGTCTGCCTCGGTGATGGAGGCGGTGGGCAGCGTCATGACCAACAAGTACAGCGAGGGCTACCCCGGCG
         ctctaac  putative branch site (score: 2)
                             taaat  TA-rich tract