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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aggagcattgaagtcactgttctccacatctcatatctgtcagaactatttattccatttcttccactaagcttgaggtttcctggggttgtctttccagGTTGCACAGACCCAGCCATTGGCAGTTGCCAACTGCAACATTGACATGGAAAGTCTCATATCTGACCAAAACCGCAGCATTGCTACTCTTGCCATTACTA

Basic information

species Physcomitrella patens
transcript PP1S15_298V6.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S15_298V6.2 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 8
aggagcattgaagtcactgttctccacatctc------atatctgtcagaactatttattccatttcttccactaagcttgaggtttcctggggttgtctttccagGTTGCACAGACCCAGCCATTGGCAGTTGCCAACTGCAACATTGACATGGAAAGTCTCATATCTGACCAAAACCGCAGCATTGCTACTCTTGCCATTACTA
   | || |    |||||| || | | || |       | || || |      |   ||  ||    ||  | | |  |    ||  | ||       |||  ||||| |||  ||| || ||| |||||||  |||||||||||||||| ||||||||| | || |||||||| ||| | ||||||||||| ||||| |||||||
-aaatcaataccttcactggtccctaaatattctaatgagatttgccgtggtcaaccatgacaaggtttttaatca-ttaagtgtgacttgaaa----cttggcagGTGGCAATGACGCATCCAATGGCAGTCACCAACTGCAACATTGATATGGAAAGTTTAATCTCTGACCAGAACAGAAGCATTGCTACCCTTGCTATTACTA

upper sequence: PP1S15_298V6.2 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA04G01470.1 (Glycine max), 3'ss of exon 8
aggagcattgaagtcactgttctccacatctc------atatctgtcagaactatttattccatttcttccactaagcttgaggtttcctggggttgtctttccagGTTGCACAGACCCAGCCATTGGCAGTTGCCAACTGCAACATTGACATGGAAAGTCTCATATCTGACCAAAACCGCAGCATTGCTACTCTTGCCATTACTA
   | ||      || |||||| | | || |       | || || ||     |   ||  ||    ||  | | |  |    || || ||       |||  ||||| |||  ||| || ||| |||||||  |||||||||||||||| ||||||||| | || |||||||| ||| | ||||||||||| || || |||||||
-aaatcaagactttcgctgttccctaaatattctaatgagatttgccatggtcaaacatgtcacggtttttaatca-ttaagtgtgtcttgaaa----cttgacagGTGGCAATGACGCATCCAATGGCAGTCACCAACTGCAACATTGATATGGAAAGTTTAATCTCTGACCAGAACAGAAGCATTGCTACCCTCGCTATTACTA

upper sequence: PP1S15_298V6.2 (Physcomitrella patens), 3'ss of exon 7
lower sequence: GLYMA11G12610.2 (Glycine max), 3'ss of exon 8
-aggagcattgaagt--cactgttctccacatc-tcatatctgtcagaactatttattccatttcttccactaagcttgaggtttcctggggttgtctttccagGTTGCACAGACCCAGCCATTGGCAGTTGCCAACTGCAACATTGACATGGAAAGTCTCATATCTGACCAAAACCGCAGCATTGCTACTCTTGCCATTACTA
 |    | || |  |   | |||     |  || | | || |||   |  |  |   | | ||| ||  |  | | |||||  |  ||  |     | || ||||| |||  ||| || ||  |||||||  | |||||||| ||||| ||||||||| |  | |||||||| ||||| |||||||| || |||||||||||||
cattttccttaatatagtattgtagctaatgtcataagatgtgttgaacttgatccatacttttattt-ataatggttgagtgtggctttgaa---ccttgcagGTGGCAATGACACATCCGATGGCAGTCACTAACTGCAATATTGATATGGAAAGTTTACTCTCTGACCAGAACCGAAGCATTGCCACACTTGCCATTACTA

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|162151629|gb|FC327758.1|FC327758
EST:     TGCGGCTGTGCGAACACTCAACAAG                         GTTGCACAGACCCAGCCATTGGCAGTTGCCAACTGCAACATTGACATGGAA
genomic: TGCGGCTGTGCGAACACTCAACAAGgtgaggcaaa ... gtctttccagGTTGCACAGACCCAGCCATTGGCAGTTGCCAACTGCAACATTGACATGGAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatttattccatttcttccactaagcttgaggtttcctggggttgtctttccagGTTGCACAGACCCAGCCATTGGCAGTTGCCAACTGCAACATTGACATGGAAAGTCTCATATCTGACCAAAACCGCAGCATTGCTACTCTTGCCATTACTA
                                           ttgtctttcc  CT-rich tract
           atttctt  TA-rich tract