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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgttgctagtgtttgtcattacacctaattttgtgcttaagataatagttcgtggtttatcacacctgtgaaatattcttacaattcaaaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGTGTCGAAGCCTTTGCGTTACTACAGCAACAATCTAATAAGCACCATTAAT

Basic information

species Physcomitrella patens
transcript PP1S101_67V6.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S101_67V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G038598_T03 (Zea mays), 3'ss of exon 2
aatgttgctagtgtttgtcattacacctaattttgtgcttaagataatagttcgtggtttatcacacctgtgaaatattcttacaattcaaaatcg-----gcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGTGTCGAAGCCTTTGCGTTACTACAGCAACAATCTAATAAGCACCATTAAT
     || |  ||  |   | || |  |  ||      ||          | |   ||   | ||  ||   | |    |         ||| | |     |||||||||| ||||||||||||||||| || || |||||||| || || || |||   |||||  | | |||||||  |||||| ||  |  ||||||| |  
-----tgttgatgcctaaaaatatatttttttggacagtttccccttcgctcctgagtgactgactgctaacacacggccacttcgaaaaaacttgtcgatgcagGTTCGAGGCTGTCATTCACTTTGCTGGGCTCAAGGCTGTTGGGGAGAGCGTGCACAAGCCCCTACTTTACTACGACAACAACCTGGTCGGCACCATCACC

upper sequence: PP1S101_67V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA11G01940.3 (Glycine max), 3'ss of exon 2
------------------------------------------------------------------aatgttgctagtgtttgtcattacacctaattttgt-gcttaagataatag-ttcgtggtttatcacacctgtgaaatattcttaca----attcaaaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGTGTCGAAGCCTTTGCGTTACTACAGCAACAATCTAATAAGCACCATTAAT
                                                                  | | |   || | ||  | |  | |  |   | ||| | | || ||  |   || ||   | ||    | ||  |  | |||| ||      |||       |||| || ||||||||||| |||||||| || ||||| || |||||||||||||||   || ||||| |  ||||| | ||||||  | |   | || || | |
gtaaggattttgacggaagcttctttctttattttttattttttattctaattagagtatgacggaagtttctttaatattattaaaaaaagatttatctgtcggtgaatatgttctctttgtacatcattgaccttgcaactttttctcacctctttttcttttcttgcagATTTGATGCTGTCATACACTTTGCTGGACTGAAAGCAGTAGGAGAAAGTGTGCAAAAACCTTTACTATACTATAACAACAACTTGACTGGGACAATCACT

upper sequence: PP1S101_67V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA01G43540.2 (Glycine max), 3'ss of exon 2
---------------------------------------------------------aatgttgctagtgtttgtcattacacctaattttgtgcttaagataatag-ttcgtggtttatcacacctgtgaaatattcttac-----aattcaaaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGTGTCGAAGCCTTTGCGTTACTACAGCAACAATCTAATAAGCACCATTAAT
                                                         | |  |   | | ||  | |       | || |   | | || ||  |   || ||   | || |  | ||  |  | |||| ||       |||       |||| |||||||||||||| || ||||| || ||||| || |||||||||||||||   || ||||| |  ||||| | ||||||  | |   | || || | |
gtaaggattatgagagaagcttctttctttttatgattctgatttgagtatgacagaagttatttcaatattattaaaagagatttatatgtcggtgaatatgttctctttgtacatcattagccttgcaactttttctcacctcctttttcttttcttgcagATTCGATGCTGTCATACATTTTGCTGGACTGAAAGCAGTAGGAGAAAGTGTGCAAAAACCTTTACTATACTATAACAACAACTTGACTGGGACAATCACT

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|100354239|gb|BY945777.1|BY945777
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100371965|gb|BY967639.1|BY967639
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCAATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGGAGAA-GTG
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGG-AGAAAGTG
EST: gi|208350330|gb|DC906032.1|DC906032
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|208377704|gb|DC932240.1|DC932240
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCATAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100449045|gb|CJ973344.1|CJ973344
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|18358112|gb|BJ190171.1|BJ190171
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|208375758|gb|DC936698.1|DC936698
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100443377|gb|BY963673.1|BY963673
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100412936|gb|BY992508.1|BY992508
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100385898|gb|BY951092.1|BY951092
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100412296|gb|BY956511.1|BY956511
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|208387323|gb|DC933074.1|DC933074
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|162192491|gb|FC369121.1|FC369121
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|18342774|gb|BJ174810.1|BJ174810
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTANGANAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100379480|gb|BY986659.1|BY986659
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|162192001|gb|FC367214.1|FC367214
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|208361787|gb|DC935027.1|DC935027
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100412866|gb|BY992475.1|BY992475
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100351733|gb|BY964522.1|BY964522
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100435311|gb|BY979179.1|BY979179
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAGGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|162231058|gb|FC406169.1|FC406169
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100423654|gb|BY976496.1|BY976496
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100369386|gb|BY948074.1|BY948074
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100436738|gb|BY979501.1|BY979501
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|208397832|gb|DC912027.1|DC912027
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|18351199|gb|BJ183250.1|BJ183250
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100437309|gb|BY961456.1|BY961456
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
EST: gi|100365706|gb|BY948371.1|BY948371
EST:     GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAG                         GTTCGATGCCGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT
genomic: GGGGATCTTTGTAAGGTGGAAGACGTACTTAAGGTGTTCAAGCTTCACAGgtatgccatg ... aaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatagttcgtggtttatcacacctgtgaaatattcttacaattcaaaatcggcagGTTCGATGCTGTCATTCACTTTGCAGGCCTGAAGGCTGTAGGAGAAAGTGTGTCGAAGCCTTTGCGTTACTACAGCAACAATCTAATAAGCACCATTAAT
                                ttcttac  putative branch site (score: 2)
                           aaatattcttacaatt  TA-rich tract