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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttgggtttgctattataaaagaacttccagagtgacttatggacactgatctttggggttgggctgaaccataattaaatgtatcgttattgtttgaagATAGGGGGAACAACAGTGAGACTAGGTGGCATAGCGAAAGGATCTGGCATGATTCATCCAAACATGGCGACCATGCTCGGA

Basic information

species Physcomitrella patens
transcript PP1S90_220V6.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S90_220V6.2 (Physcomitrella patens), 3'ss of exon 10
lower sequence: EFJ20784 (Selaginella moellendorffii), 3'ss of exon 8
gttgggtttgctattataaaagaacttccagagtgacttatggacactgatctttggggttgggctgaaccataattaaatgtatcgttattgtttgaagATAGGGGGAACAACAGTGAGACTAGGTGGCATAGCGAAAGGATCTGGCATGATTCATCCAAACATGGCGACCATGCTCGGA
                                                     |  || ||  | || |  |       |   |  | || || | | || | || ||||| || || |   | |||||||| |||||||||||||| ||||| ||||||||||||||||| |||||  | 
----------------------------------------------------gtgaggcttcagatgcatgagtgccttacaaaa-gctagtgct-gtagGTGGGAGGAACGACCGTTAAGATCGGTGGCATGGCGAAAGGATCTGGGATGATCCATCCAAACATGGCGACGATGCTTAGT

upper sequence: PP1S90_220V6.2 (Physcomitrella patens), 3'ss of exon 10
lower sequence: EFJ32643 (Selaginella moellendorffii), 3'ss of exon 8
gttgggtttgctattataaaagaacttccagagtgacttatggacactgatctttggggttgggctgaaccataattaaatgtatcgttattgtttgaagATAGGGGGAACAACAGTGAGACTAGGTGGCATAGCGAAAGGATCTGGCATGATTCATCCAAACATGGCGACCATGCTCGGA
                                                     |  || ||  | || |  |       |  ||  | || |   || || | || ||||| || || |   | |||||||| |||||||||||||| ||||| ||||||||||||||||| |||||  | 
----------------------------------------------------gtgaggcttcagatgcatgagtgccttac-taaagctagt-cctgtagGTGGGAGGAACGACCGTTAAGATCGGTGGCATGGCGAAAGGATCTGGGATGATCCATCCAAACATGGCGACGATGCTTAGT
















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|162173818|gb|FC349410.1|FC349410
EST:     CCATCACAACTACTGATCTTGTCAGCAAGAGTGTTGCAATTGAAACGAAG                         ATAGGGGGAACAACAGTGAGACTAGGTGGCATAGCGAAAGGATCTGGCATG
genomic: CCATCACAACTACTGATCTTGTCAGCAAGAGTGTTGCAATTGAAACGAAGgtatatctgt ... ttgtttgaagATAGGGGGAACAACAGTGAGACTAGGTGGCATAGCGAAAGGATCTGGCATG
EST: gi|162169383|gb|FC345739.1|FC345739
EST:     CCATCACAACTACTGATCTTGTCAGCAAGAGTGTTGCAATTGAAACGAAG                         ATAGGGGGAACAACAGTGAGACTAGGTGGCATAGCGAAAGGATCTGGCATG
genomic: CCATCACAACTACTGATCTTGTCAGCAAGAGTGTTGCAATTGAAACGAAGgtatatctgt ... ttgtttgaagATAGGGGGAACAACAGTGAGACTAGGTGGCATAGCGAAAGGATCTGGCATG
EST: gi|162152901|gb|FC329203.1|FC329203
EST:     CCATCACAACTACTGATCTTGTCAGCAAGAGTGTTGCAATTGAAACGAAG                         ATAGGGGGAACAACAGTGAGACTAGGTGGCATAGCGAAAGGATCTGGCATG
genomic: CCATCACAACTACTGATCTTGTCAGCAAGAGTGTTGCAATTGAAACGAAGgtatatctgt ... ttgtttgaagATAGGGGGAACAACAGTGAGACTAGGTGGCATAGCGAAAGGATCTGGCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgatctttggggttgggctgaaccataattaaatgtatcgttattgtttgaagATAGGGGGAACAACAGTGAGACTAGGTGGCATAGCGAAAGGATCTGGCATGATTCATCCAAACATGGCGACCATGCTCGGA
 cactgat  putative branch site (score: 3)
                          ataattaaatgtatcg  TA-rich tract