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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagatccactagtaccatgcaaaaaaaaacaagaagattcggccgaagatttacattactacaagagattgatgtaaaaaagctgctcaggatctgtagacaaatgaactgtatataactgattcattacaccctgttaatccgcagATTTGGAACAGATTTTGCTGCTATTGCCAAGTTCGTAGGCACACGCAGTTCCACCCAAGTTCGCACTCATGCGCAAAAATACTACGCGAAGTTG

Basic information

species Physcomitrella patens
transcript PP1S87_134V6.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S87_134V6.1 (Physcomitrella patens), 3'ss of exon 3
lower sequence: EFJ30923 (Selaginella moellendorffii), 3'ss of exon 3
gtgagatccactagtaccatgcaaaaaaaaacaagaagattcggccgaagatttacattactacaagagattga-tgtaaaaaagctgctcaggatctgtagacaaatgaactgtatataactgattcattacaccctgttaatcc---gcagATTTGGAACAGATTTTGCTGCTATTGCCAAGTTCGTAGGCACACGCAGTTCCACCCAAGTTCGCACTCATGCGCAAAAATACTACGCGAAGTTG
                                                         | |  | |||   ||   |||| | || ||       |  |     || |  |    ||  | |||  || |  | || |||  | ||    |||| |||||||| ||||||||||| ||||| |||||||| || ||  | || ||||| |||||||||||||| ||||| ||||||||||| ||  | 
--------------------------------------------------------gtaagcaaaagcttttagctgtatataaactttcttttagtttccttcacaccagtgatac-tcact--ttgagaaaactctgagattctcttgcagCTTTGGAACCGATTTTGCTGCCATTGCAAAGTTCGTCGGGACGAGAAGCTCCACTCAAGTTCGCACTCACGCGCAGAAATACTACGCCAAACTT
















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|67698362|gb|BJ958595.1|BJ958595
EST:     AGATATTGGACAAATGAAGAGCGTCAAAGATTCAAAAAAGCTCTTAAAAC                         ATTTGGAACAGATTTTGCTGCTATTGCCAAGTTCGTAGGCACACGCAGTTC
genomic: AGATATTGGACAAATGAAGAGCGTCAAAGATTCAAAAAAGCTCTTAAAACgtgagatcca ... taatccgcagATTTGGAACAGATTTTGCTGCTATTGCCAAGTTCGTAGGCACACGCAGTTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgtagacaaatgaactgtatataactgattcattacaccctgttaatccgcagATTTGGAACAGATTTTGCTGCTATTGCCAAGTTCGTAGGCACACGCAGTTCCACCCAAGTTCGCACTCATGCGCAAAAATACTACGCGAAGTTG
                                          tgttaat  putative branch site (score: 3)
                                       ccctgtt  CT-rich tract
                 tgtatataa  TA-rich tract