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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgtggctctgtatctctacctctctttttagaacttggttgcatgtcctcttatcgcgactaatgtcgcgatccttattgagcagcttcaaacgtgccctctagttttatgtttatatatagatagatagatagatagataagaattacacggtgtaaatttggttcgcagGGTGCTGGAGCTTTTTACAAGGGATTTTTGCCCAATTTCGGTCGACTTGGTTCTTGGAACGTCATTATGTTTTTGACCTTGGAACAG

Basic information

species Physcomitrella patens
transcript PP1S54_186V6.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S54_186V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: Vv08s0007g01700.t01 (Vitis vinifera), 3'ss of exon 7
gtccgtggctctgtatctctacctctctttttagaacttggttgcatgtcctcttatcgcgactaatgtcgcgatccttattg-agcagcttcaaacgtgccctctagttttatgtttatatatagatagatagatagatagataag-aattacacggtgtaaatttggttcgcagGGTGCTGGAGCTTTTTACAAGGGATTTTTGCCCAATTTCGGTCGACTTGGTTCTTGGAACGTCATTATGTTTTTGACCTTGGAACAG
                                                                    | | ||||  | ||  |   |  ||  |   |        | || | | |  ||  ||| || ||  |  |   | | |  |   |||     | || || || ||||||  ||   || || |||||||| ||| | || ||||| || || || || |||||||||||||| |||||| ||||||||||||||
--------------------------------------------------------------------ttg-gatctctgttacaattgactcggataag------gatcttttatgtgaatgcagacagctatgttaactaacatgcgaactcacatca-atatctgttttgcagGGGCCTCTTGCCTTCTACAAGGGTTTTATACCAAATTTTGGACGGCTGGGATCTTGGAACGTCATCATGTTTCTGACCTTGGAACAG
















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|208374000|gb|DC944733.1|DC944733
EST:     GTGCTTACAAAGGCACAATTGACTGTTTCGTTCAGACTTTTAAGAATGAT                         GGTGCTGGAGCTTTTTACAAGGGATTTTTGCCCAATTTCGGTCGACTTGGT
genomic: GTGCTTACAAAGGCACAATTGACTGTTTCGTTCAGACTTTTAAGAATGATgtccgtggct ... tggttcgcagGGTGCTGGAGCTTTTTACAAGGGATTTTTGCCCAATTTCGGTCGACTTGGT
EST: gi|208372592|gb|DC944599.1|DC944599
EST:     GTGCTTACAAAGGCACAATTGACTGTTTCGTTCAGACTTTTAAGAATGAT                         GGTGCTGGAGCTTTTTACAAGGGATTTTCGCCCAATTTCGGTCGACTTGGT
genomic: GTGCTTACAAAGGCACAATTGACTGTTTCGTTCAGACTTTTAAGAATGATgtccgtggct ... tggttcgcagGGTGCTGGAGCTTTTTACAAGGGATTTTTGCCCAATTTCGGTCGACTTGGT
EST: gi|162230432|gb|FC407087.1|FC407087
EST:     GTGCTTACAAAGGCACAATTGACTGTTTCGTTCAGACTTTTAAGAATGAT                         GGTGCTGGAGCTTTTTACAAGGGATTTTTGCCCAATTTCGGTCGACTTGGT
genomic: GTGCTTACAAAGGCACAATTGACTGTTTCGTTCAGACTTTTAAGAATGATgtccgtggct ... tggttcgcagGGTGCTGGAGCTTTTTACAAGGGATTTTTGCCCAATTTCGGTCGACTTGGT
EST: gi|162158108|gb|FC333903.1|FC333903
EST:     GTGCTTACAAAGGCACAATTGACTGTTTCGTTCAGACTTTTAAGAATGAT                         GGTGCTGGAGCTTTTTACAAGGGATTTTTGCCCAATTTCGGTCGACTTGGT
genomic: GTGCTTACAAAGGCACAATTGACTGTTTCGTTCAGACTTTTAAGAATGATgtccgtggct ... tggttcgcagGGTGCTGGAGCTTTTTACAAGGGATTTTTGCCCAATTTCGGTCGACTTGGT
EST: gi|162272364|gb|FC449029.1|FC449029
EST:     GTGCTTACAAAGGCACAATTGACTGTTTCGTTCAGACTTTTAAGAATGAT                         GGTGCTGGAGCTTTTTACAAGGGATTTTTGCCCAATTTCGGTCGACTTGGT
genomic: GTGCTTACAAAGGCACAATTGACTGTTTCGTTCAGACTTTTAAGAATGATgtccgtggct ... tggttcgcagGGTGCTGGAGCTTTTTACAAGGGATTTTTGCCCAATTTCGGTCGACTTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatagatagatagatagatagataagaattacacggtgtaaatttggttcgcagGGTGCTGGAGCTTTTTACAAGGGATTTTTGCCCAATTTCGGTCGACTTGGTTCTTGGAACGTCATTATGTTTTTGACCTTGGAACAG
                  atagataagaatta  TA-rich tract