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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttatccttagttcgagtgcgaactggtctttgagaaggcgtccgtgcggttttcaccgtttagtatgtaagtctcaacgatgttcaaccagcttttggattttttgaattttgcatgccgattatttgatcggcgaatgtggtttgtcagTCTCTGAGGAAGCTGAATCATCCAAATATTGTGAAGTTGAAGGAGGTTATCAGAGAAAACGATGAACTATTTTTTGTGTTCGAGTACATG

Basic information

species Physcomitrella patens
transcript PP1S479_13V6.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S479_13V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: AT4G19110.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgttatccttagttcgagtgcgaactggtctttgagaaggcgtccgtgcggttttcaccgtttagtatgtaagtctcaacgatgttcaaccagcttttggattttttgaattttgcatgccgattatttgatcggcgaatgtggtttgtcagTCTCTGAGGAAGCTGAATCATCCAAATATTGTGAAGTTGAAGGAGGTTATCAGAGAAAACGATGAACTATTTTTTGTGTTCGAGTACATG
                                                                   ||||  || |  |     |||| ||   ||||||   ||| |||  |  || |||   | |  ||  ||  |   |      | | |||| || ||||   ||||||||||||| ||||||||||||||||| || ||| | ||||| |||   ||||  ||||| || |||||||||
-------------------------------------------------------------------gtattgaactgcctt---tgtttaaat-gcttttttttttcttgtttactgtatgtgtacttattcctc--cttttccctcctattagTCGCTCAGGAGAATGAATCATCCAAACATTGTGAAGTTGAAGGAAGTAATCCGGGAAAATGATATCCTATACTTTGTCTTTGAGTACATG

upper sequence: PP1S479_13V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: AT5G45430.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatgttatccttagttcgagtgcgaactggtctttgagaaggcgtccgtgcggttttcaccgtttagtatgtaagtctcaacgatgttcaaccagcttttggattttttgaattttgcatgccgattatttgatcggcgaatgtggtttgtcagTCTCTGAGGAAGCTGAATCATCCAAATATTGTGAAGTTGAAGGAGGTTATCAGAGAAAACGATGAACTATTTTTTGTGTTCGAGTACATG
                                                              ||   |||| | | |  |    | |||        ||||   ||||||    | ||   || |||| |||  |   |  ||      | | |||| || || |   ||||||||||||| ||||||||| ||||||| || ||| | ||||| |||   ||||  |||||||| |||||||||
--------------------------------------------------------------gtactgtatctcattagctgaaaggttttgttttttttt---ttttttactgtatgttcgctgatttttttcttttctcat------tat-agTCACTTAGCAGAATGAATCATCCAAACATTGTGAAGCTGAAGGAAGTCATCCGGGAAAATGATATCCTATACTTTGTGTTTGAGTACATG
















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|100447621|gb|CJ971920.1|CJ971920
EST:     AGTTTTACTCGTGGGATGAATGCATGAATCTTAGAGAAGTCAAG                         TCTCTGAGGAAGCTGAATCATCCAAATATTGTGAAGTTGAAGGAGGTTATC
genomic: AGTTTTACTCGTGGGATGAATGCATGAATCTTAGAGAAGTCAAGgtatgttatc ... ggtttgtcagTCTCTGAGGAAGCTGAATCATCCAAATATTGTGAAGTTGAAGGAGGTTATC
EST: gi|162166081|gb|FC342557.1|FC342557
EST:     AGAGGAAGTTTTACTCGTGGGATGAATGCATGAATCTTAGAGAAGTCAAG                         TCTCTGAGGAAGCTGAATCATCCAAATATTGTGAAGTTGAAGGAGGTTATC
genomic: AGAGGAAGTTTTACTCGTGGGATGAATGCATGAATCTTAGAGAAGTCAAGgtatgttatc ... ggtttgtcagTCTCTGAGGAAGCTGAATCATCCAAATATTGTGAAGTTGAAGGAGGTTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggattttttgaattttgcatgccgattatttgatcggcgaatgtggtttgtcagTCTCTGAGGAAGCTGAATCATCCAAATATTGTGAAGTTGAAGGAGGTTATCAGAGAAAACGATGAACTATTTTTTGTGTTCGAGTACATG
                            atttgat  putative branch site (score: 5)
     tttttgaatttt  TA-rich tract