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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtacttgtgatatatgaaaatctctatactgtttcaagtgaaccacgtaatcataaaagaaaagagaaatgcattttattttgtttacccttagtcatcttgtttctttggaattgtgtatgttaatctctctgctgctgtgccttgtgcagAACGATCTAAAGAGTCATGTTTGTTGGCATGTCTACGGACTTTTGTACCGTTCTGATCGTGATTACCGGGAGGCCATCAAATGTTATCGATGTGCCCTTC

Basic information

species Physcomitrella patens
transcript PP1S201_47V6.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S201_47V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: GRMZM2G047093_T01 (Zea mays), 3'ss of exon 3
gtatgtacttgtgatatatgaaaatctctatactgtttcaagtgaaccacgtaatcataaaagaaaagagaaatgcattttattttgtttacccttagtcatcttgtttctttggaattgtgtatgtta-atctctctgctgctgtgccttgtgcagAACGATCTAAAGAGTCATGTTTGTTGGCATGTCTACGGACTTTTGTACCGTTCTGATCGTGATTACCGGGAGGCCATCAAATGTTATCGATGTGCCCTTC
                                                         | |   |  |  | |||| ||| | | ||||| |    |  | ||    |    |   | ||    |  | | | ||  ||  |  |   | || ||||||| ||||| ||||||||||| ||||||||||| || ||  |  | || || || ||| | || ||| | || || || ||||||||  ||  |||  |  
--------------------------------------------------------gttatcaattattgcaatgaattctctgttgttgatg--tgatgattaaatggggtacaagtttcagaactcagaactaactaataataaactttttgcagAATGATCTGAAGAGTCATGTCTGTTGGCATGTTTATGGTTTGCTTTATCGGTCAGATAGAGAATACAGAGAAGCTATAAAATGTTACAGAAATGCATTGA
















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|18362279|gb|BJ194349.1|BJ194349
EST:     GCATGGATAGGAAAGCAGAGGCTTTTGAGCTTGTCCGTAAAGGTCTGAAG                         AACGATCTAAAGAGTCATGTTTGTTGGCATGTCTACGGACTTTTGTACCGT
genomic: GCATGGATAGGAAAGCAGAGGCTTTTGAGCTTGTCCGTAAAGGTCTGAAGgtatgtactt ... ccttgtgcagAACGATCTAAAGAGTCATGTTTGTTGGCATGTCTACGGACTTTTGTACCGT
EST: gi|18331750|gb|BJ163761.1|BJ163761
EST:     GCATGGATAGGAAAGCAGAGGCTTTTGAGCTTGTCCGTAAAGGTCTGAAG                         AACGATCTAAAGAGTCATGTTTGTTGGCATGTCTACGGACTTTTGTACCGN
genomic: GCATGGATAGGAAAGCAGAGGCTTTTGAGCTTGTCCGTAAAGGTCTGAAGgtatgtactt ... ccttgtgcagAACGATCTAAAGAGTCATGTTTGTTGGCATGTCTACGGACTTTTGTACCGT
EST: gi|18364010|gb|BJ196083.1|BJ196083
EST:     GCATGGATAGGAAAGCAGAGGCTTTTGAGCTTGTCCGTAAAGGTCTGAAG                         AACGATCTAAAGAGTCATGTTTGTTGGCATGTCTACGGACTTTTGTACCGN
genomic: GCATGGATAGGAAAGCAGAGGCTTTTGAGCTTGTCCGTAAAGGTCTGAAGgtatgtactt ... ccttgtgcagAACGATCTAAAGAGTCATGTTTGTTGGCATGTCTACGGACTTTTGTACCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgtttctttggaattgtgtatgttaatctctctgctgctgtgccttgtgcagAACGATCTAAAGAGTCATGTTTGTTGGCATGTCTACGGACTTTTGTACCGTTCTGATCGTGATTACCGGGAGGCCATCAAATGTTATCGATGTGCCCTTC
                       tgttaat  putative branch site (score: 3)
                     tatgttaat  TA-rich tract