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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgtcttatcatcctaacatggttatctagaggagtcctgcgttatgtgtttttggtagtggctctttagtgcgtaactcctagaccttactttggtgatgtccaactgctttgtattaactctttgagagggtatagttgttctcaacatttaattctacatatcttattttccttgcagGGCAAGAAACGCAAGGACACTGTGTGTATTGTGTTAGCTGATGACACTTGTGATGAACCTAAGATACGGATGAACAAGGTGGTGAGAGCCAATCTTCGGG

Basic information

species Physcomitrella patens
transcript PP1S296_11V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S296_11V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ08901 (Selaginella moellendorffii), 3'ss of exon 2
gttcgtcttatcatcctaacatggttatctagaggagtcctgcgttatgtgtttttggtagtggctctttagtgcgtaactcctagaccttactttggtgatgtccaactgctttgtattaactctttgagagggtatagttgttctcaacatttaattctacatatcttattttccttgcagGGCAAGAAACGCAAGGACACTGTGTGTATTGTGTTAGCTGATGACACTTGTGATGAACCTAAGATACGGATGAACAAGGTGGTGAGAGCCAATCTTCGGG
                                                                                                                   ||||      ||||   |  |    |  |||   ||          | || ||  |      || ||||||||||| ||||| |||||||| ||||||||  | || || |||| ||| || || ||||| || || ||||||||||||||  || | ||  | ||||
-------------------------------------------------------------------------------------------------------------------gtatgtggcttttgtttgcctccc-tccttcctgacggcggggcacaaatctccgaaa---atttcagGGCAAGAAGCGCAAAGACACTGTCTGTATTGTTCTGGCAGACGACAGTTGCGAGGAGCCTAAAATCCGTATGAACAAGGTGGTCCGAACAAACTTGCGGG
















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|18372721|gb|BJ204323.1|BJ204323
EST:     AGACCATGGAAAAGCTGCAGCTTTTTCGTGGAGACACTGTGCTGATTAAG                         GGCAAGAAACGCAAGGACACTGTGTGTATTGTGTTAGCTGATGACACTTGT
genomic: AGACCATGGAAAAGCTGCAGCTTTTTCGTGGAGACACTGTGCTGATTAAGgttcgtctta ... ttccttgcagGGCAAGAAACGCAAGGACACTGTGTGTATTGTGTTAGCTGATGACACTTGT
EST: gi|18356383|gb|BJ188442.1|BJ188442
EST:     AGACCATGGAAAAGCTGCAGCTTTTTCGTGGAGACACTGTGCTGATTAAG                         GGCAAGAAACGCAAGGACACTGTGTGTATTGTGTTAGCTGATGACACTTGT
genomic: AGACCATGGAAAAGCTGCAGCTTTTTCGTGGAGACACTGTGCTGATTAAGgttcgtctta ... ttccttgcagGGCAAGAAACGCAAGGACACTGTGTGTATTGTGTTAGCTGATGACACTTGT
EST: gi|100412445|gb|BY974737.1|BY974737
EST:     AGACCATGGAAAAGCTGCAGCTTTTTCGAGGAGACACTGTGCTGATTAAG                         GGCAAGAAACGCAAGGACACTGTGTGTATTGAGTTAGCTGATGAACACTTG
genomic: AGACCATGGAAAAGCTGCAGCTTTTTCGTGGAGACACTGTGCTGATTAAGgttcgtctta ... ttccttgcagGGCAAGAAACGCAAGGACACTGTGTGTATTGTGTTAGCTGATGA-CACTTG
EST: gi|67569992|gb|BJ942816.1|BJ942816
EST:     AGACCATGGAAAAGCTGCAGCTTTTTCGTGGAGACACTGTGCTGATTAAG                         GGCAAGAAACGCAAGGACACTGTGTGTATTGTGTTAGCTGATGACACTTGT
genomic: AGACCATGGAAAAGCTGCAGCTTTTTCGTGGAGACACTGTGCTGATTAAGgttcgtctta ... ttccttgcagGGCAAGAAACGCAAGGACACTGTGTGTATTGTGTTAGCTGATGACACTTGT
EST: gi|162199959|gb|FC376226.1|FC376226
EST:     GGAAAAGCTGCAGCTTTTTCGTGGAGACACTGTGCTGATTAAG                         GGCAAGAAACGCAAGGACACTGTGTGTATTGTGTTAGCTGATGACACTTGT
genomic: GGAAAAGCTGCAGCTTTTTCGTGGAGACACTGTGCTGATTAAGgttcgtctta ... ttccttgcagGGCAAGAAACGCAAGGACACTGTGTGTATTGTGTTAGCTGATGACACTTGT
EST: gi|67572405|gb|BJ945229.1|BJ945229
EST:     AGACCATGGAAAAGCTGCAGCTTTTTCGTGGAGACACTGTGCTGATTAAG                         GGCAAGAAACGCAAGGACACTGTGTGTATTGTGTTAGCTGATGACACTTGT
genomic: AGACCATGGAAAAGCTGCAGCTTTTTCGTGGAGACACTGTGCTGATTAAGgttcgtctta ... ttccttgcagGGCAAGAAACGCAAGGACACTGTGTGTATTGTGTTAGCTGATGACACTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagagggtatagttgttctcaacatttaattctacatatcttattttccttgcagGGCAAGAAACGCAAGGACACTGTGTGTATTGTGTTAGCTGATGACACTTGTGATGAACCTAAGATACGGATGAACAAGGTGGTGAGAGCCAATCTTCGGG
                       atttaat  putative branch site (score: 4)
                                    tatcttattttcctt  putative PPT
                    aacatttaattctaca  TA-rich tract