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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttcatgctcttcccattaagtcatttgtgttcgttcctgtcctgtttgttgtttccgtatgagtcttgtatcttctggctcttatattgtcttgttattccttactgcattgtcattttttccttctgctttctcttttgtcctaagcattgtcttggtaacagGTAGCTAATAAACTCATTGATGAAGAAGCTTTCTACTATCCCCACAATCTTGACTTCAGGGGACGAGCGTACCCCATGCACCCACACTTGAATCACTTAG

Basic information

species Physcomitrella patens
transcript PP1S246_118V6.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S246_118V6.1 (Physcomitrella patens), 3'ss of exon 10
lower sequence: GLYMA16G13080.1 (Glycine max), 3'ss of exon 8
gtatgtttcatgctcttcccattaagtcatttgtgttcgttcctgtcctgtttgttgtttccgtatgagtcttgtatcttctggctcttatattgtcttgttattccttactgcattgtcattttttccttctgctttctcttttgtcctaagcattgtcttggtaacagGTAGCTAATAAACTCATTGATGAAGAAGCTTTCTACTATCCCCACAATCTTGACTTCAGGGGACGAGCGTACCCCATGCACCCACACTTGAATCACTTAG
                                                                    ||     |||| ||  | || |     |   |||||    ||    ||  |       |  |  ||| ||||   ||||   |     | | || |    |||| |||   ||  | |  ||||||||||| ||||| ||||| ||||||||||| ||  | || ||||| || |||||||||||| | ||||||||  | |
--------------------------------------------------------------------gtaagaaatctccttcccctgaagagattgagttata---tatcaaatgctttccaggtgatgttgcattcttcattgttgcactggcttttttcgctgtagGTTGCTCGAAAGATGAAGGATGAAGAAGCCTTCTATTATCCTCACAATCTTGATTTTCGAGGGCGAGCTTATCCCATGCACCCATATTTGAATCATCTTG
















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|162164597|gb|FC341892.1|FC341892
EST:     CTAATAGTGAGCGGCATTCTTTGCGTTGTGATACAGAATTGAAGCTTGGG                         GTAGCTAATAAACTCATTGATGAAGAAGCTTTCTACTATCCCCACAATCTT
genomic: CTAATAGTGAGCGGCATTCTTTGCGTTGTGATACAGAATTGAAGCTTGGGgtatgtttca ... ttggtaacagGTAGCTAATAAACTCATTGATGAAGAAGCTTTCTACTATCCCCACAATCTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtcattttttccttctgctttctcttttgtcctaagcattgtcttggtaacagGTAGCTAATAAACTCATTGATGAAGAAGCTTTCTACTATCCCCACAATCTTGACTTCAGGGGACGAGCGTACCCCATGCACCCACACTTGAATCACTTAG
                                        ttgtctt  CT-rich tract
     atttttt  TA-rich tract