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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtattccacttggtttgatttgctcctactccatctaatcatgttgagaaatttccaagctgcaaggttgtaagggaacccccatatactcgtgaattttaccagaagttagcctgcaacttagcacgaggtgatgtgcagGGCGAGGATGTCGGAACTGGTCTTCTAACTTATCCGTTGCTCATGGCTTCTGATATCATACTATATCAA

Basic information

species Physcomitrella patens
transcript PP1S5_195V6.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S5_195V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: EFJ29194 (Selaginella moellendorffii), 3'ss of exon 4
gtaagtattccacttggtttgatttgctcctactccatctaatcatgttgagaaatttccaagctgcaaggttgtaagggaacccccatatactcgtgaattttaccagaagttagcctgcaacttagcacgaggt--gatgtgcagGGCGAGGATGTCGGAACTGGTCTTCTAACTTATCCGTTGCTCATGGCTTCTGATATCATACTATATCAA
                                                                                                 | ||||      ||| | | || |   |     |    |  | | | ||||| ||||| || |||||||| ||||||||||| || ||||||||||| || |||||  | || ||||| 
-------------------------------------------------------------------------------------------------gtattt----gaaagcttgtctccttttcgttccttcattcggttttcagGGTGAGGACGTAGGAACTGGACTTCTAACTTACCCTTTGCTCATGGCATCAGATATACTGCTCTATCAG
















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|162159331|gb|FC335145.1|FC335145
EST:     TCAGTTGGCTTAACAAAATGATTCAGTTTAAAGAAAAGTCCCGCAAATCG                         GGCGAGGATGTCGGAACTGGTCTTCTAACTTATCCGTTGCTCATGGCTTCT
genomic: TCAGTTGGCTTAACAAAATGATTCAGTTTAAAGAAAAGTCCCGCAAATCGgtaagtattc ... tgatgtgcagGGCGAGGATGTCGGAACTGGTCTTCTAACTTATCCGTTGCTCATGGCTTCT
EST: gi|67571511|gb|BJ944335.1|BJ944335
EST:     CAGTTGGCTTAACAAAATGATTCAGTTTAAAGAAAAGTCCCGCAAATCG                         GGCGAGGATGTCGGAACTGGTCTTCTAACTTATCCGTTGCTCATGGCTTCT
genomic: CAGTTGGCTTAACAAAATGATTCAGTTTAAAGAAAAGTCCCGCAAATCGgtaagtattc ... tgatgtgcagGGCGAGGATGTCGGAACTGGTCTTCTAACTTATCCGTTGCTCATGGCTTCT
EST: gi|162232167|gb|FC407730.1|FC407730
EST:     TCAGTTGGCTTAACAAAATGATTCAGTTTAAAGAAAAGTCCCGCAAATCG                         GGCGAGGATGTCGGAACTGGTCTTCTAACTTATCCGTTGCTCATGGCTTCT
genomic: TCAGTTGGCTTAACAAAATGATTCAGTTTAAAGAAAAGTCCCGCAAATCGgtaagtattc ... tgatgtgcagGGCGAGGATGTCGGAACTGGTCTTCTAACTTATCCGTTGCTCATGGCTTCT
EST: gi|100433415|gb|BY960569.1|BY960569
EST:     TCAGTTGGCTTAACAAAATGATTCAGTTTAAAGAAA-GTCCCGCAAATCG                         GGCGAGGATGTCGGAACTGGTCTTCTAACTTATCCGTTGCTCATGGCTTCT
genomic: TCAGTTGGCTTAACAAAATGATTCAGTTTAAAGAAAAGTCCCGCAAATCGgtaagtattc ... tgatgtgcagGGCGAGGATGTCGGAACTGGTCTTCTAACTTATCCGTTGCTCATGGCTTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactcgtgaattttaccagaagttagcctgcaacttagcacgaggtgatgtgcagGGCGAGGATGTCGGAACTGGTCTTCTAACTTATCCGTTGCTCATGGCTTCTGATATCATACTATATCAA
      tgaatttta  TA-rich tract