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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCATAACGGAGTATGAAGAGCATGAAAAGAGGGCATGGAGTGTGGATTTTTCACGAACTGATCCCACTATGTTAGTCTCGGGAAGCGATGATGGCAAGgtgatttgttgaaatgttgtgattttatcactcaagtaactgatggaccttcgtttgacaaggccccttaaactggaaggtagtttttgggcttctgcatcaaggatcgaagcgaatgtgtagttgatcctgaagctttttgcattgtttcttgcag

Basic information

species Physcomitrella patens
transcript PP1S86_153V6.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S86_153V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: LOC_Os02g53140.1 (Oryza sativa), 5'ss of exon 9
AGCATAACGGAGTATGAAGAGCATGAAAAGAGGGCATGGAGTGTGGATTTTTCACGAACTGATCCCACTATGTTAGTCTCGGGAAGCGATGATGGCAAGgtgatt---tgttgaaatgttgtga----ttttatcactcaagtaactgatggaccttcgtttgacaaggccccttaaactggaaggtagtttttgggcttctgcatcaaggatcgaagcgaatgtgtagttgatcctgaagctttttgcattgtttcttgcag
||  | | |||||||||||| ||||||||||| ||||||||||| |||||||| ||||| || ||| | ||| |||| || || || |||||| |||||||  ||     ||  |||| |   |    |||| | | ||  | ||   |   | ||| |  |       | |   | || | ||   |    ||||   | |                                                             
AGTGTGATGGAGTATGAAGAACATGAAAAGAGAGCATGGAGTGTTGATTTTTCTCGAACAGAACCCTCGATGCTAGTATCTGGGAGTGATGATTGCAAGgtatttgcaaatttcaatggtacaactacttttgttattcccgaaagcaagaaaactttgcgtagtt---ctcaaaatacagtaaaacataacttggatatat-------------------------------------------------------------

upper sequence: PP1S86_153V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GRMZM2G104920_T02 (Zea mays), 5'ss of exon 8
AGCATAACGGAGTATGAAGAGCATGAAAAGAGGGCATGGAGTGTGGATTTTTCACGAACTGATCCCACTATGTTAGTCTCGGGAAGCGATGATGGCAAGgtgatttgttga-aatgttgtgattttatcactcaagtaactgatggaccttcgtttgacaaggccccttaaactggaaggtagtttttgggcttctgcatcaaggatcgaagcgaatgtgtagttgatcctgaagctttttgcattgtttcttgcag
||  | | ||| |||||||||||||| ||||| ||||||||||| |||||||| || || ||  |  | ||| |||| || || || |||||| |||||||  || |  |  ||| |||| |  ||| || ||   |  |    | | ||  |   || |||    |||         |||  ||||    ||      ||||| | | ||   | | | |                                    
AGTGTGATGGAATATGAAGAGCATGAGAAGAGAGCATGGAGTGTTGATTTTTCTCGCACAGACTCTTCAATGCTAGTATCTGGGAGTGATGATTGCAAGgtatttggaagttaatattgtaaaatta-cattctcattcc----gaaactaagagagaaaag----ctt---------ggtgatttt----ctcaaatgtcaagtaccaaaatcactttat------------------------------------

upper sequence: PP1S86_153V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GRMZM2G126795_T01 (Zea mays), 5'ss of exon 10
AGCATAACGGAGTATGAAGAGCATGAAAAGAGGGCATGGAGTGTGGATTTTTCACGAACTGATCCCACTATGTTAGTCTCGGGAAGCGATGATGGCAAGgtgatttgttgaaatgttgtgattttatcactcaagtaactgatggaccttcgtttgacaaggccccttaaactggaaggtagtttttgggc-ttctgcatcaaggatcgaagcgaatgtgtagttgatcctgaagctttttgcattgtttcttgcag
||  | | ||| |||||||||||||| || || ||||||||||| |||||||| ||||| || ||  | ||| |||| || || || || ||| ||||||| |||||  |||||       |  |||   |||  |  | | |    |||  |   || | |      || || |  | |  || ||     ||  | | |||    | | |                                             
AGTGTGATGGAATATGAAGAGCATGAGAAAAGAGCATGGAGTGTTGATTTTTCTCGAACAGAGCCTTCAATGCTAGTATCTGGGAGTGACGATTGCAAGgt-atttg--gaaat-------taatattgttcagat--ccgttc--tctttctcaaactaagaaagaaaagcttggcgttttttcttaaatgttgagtaccaaaatcctaggt--------------------------------------------

upper sequence: PP1S86_153V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GRMZM2G126795_T02 (Zea mays), 5'ss of exon 10
AGCATAACGGAGTATGAAGAGCATGAAAAGAGGGCATGGAGTGTGGATTTTTCACGAACTGATCCCACTATGTTAGTCTCGGGAAGCGATGATGGCAAGgtgatttgttgaaatgttgtgattttatcactcaagtaactgatggaccttcgtttgacaaggccccttaaactggaaggtagtttttgggc-ttctgcatcaaggatcgaagcgaatgtgtagttgatcctgaagctttttgcattgtttcttgcag
||  | | ||| |||||||||||||| || || ||||||||||| |||||||| ||||| || ||  | ||| |||| || || || || ||| ||||||| |||||  |||||       |  |||   |||  |  | | |    |||  |   || | |      || || |  | |  || ||     ||  | | |||    | |                                               
AGTGTGATGGAATATGAAGAGCATGAGAAAAGAGCATGGAGTGTTGATTTTTCTCGAACAGAGCCTTCAATGCTAGTATCTGGGAGTGACGATTGCAAGgt-atttg--gaaat-------taatattgttcagat--ccgttc--tctttctcaaactaagaaagaaaagcttggcgttttttcttaaatgttgagtaccaaaatcctag----------------------------------------------

upper sequence: PP1S86_153V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GLYMA02G43540.2 (Glycine max), 5'ss of exon 9
AGCATAACGGAGTATGAAGAGCATGAAAAGAGGGCATGGAGTGTGGATTTTTCACGAACTGATCCCACTATGTTAGTCTCGGGAAGCGATGATGGCAAGgtgatttgttgaaatgttgtgattttatcactcaagtaactgatggaccttcgt--ttgacaaggccccttaaactggaaggtagtttttgggcttctgcatcaaggatcgaagcgaatgtgtagttgatcctgaagctttttgcattgtttcttgcag
||  ||| ||| |||||||||||||||||| | ||||||||||| || |||||| |||| |||||| ||||| | || || || ||||||||  | |||||  | ||   |||| | |   ||||    |     |  || |    | |  ||  ||  |||      ||||| || ||   |   ||      | |  || |                                                       
AGTTTAATGGAATATGAAGAGCATGAAAAGCGTGCATGGAGTGTAGACTTTTCAAGAACAGATCCCTCTATGCTTGTATCTGGTAGCGATGACTGTAAGgtactctg---aaatttggaagtttttgtgccagtttccctaaaatgcttctgtaatttccaatattttttaaa-tgaaaatgatgcttaacatatgtttatta-------------------------------------------------------

upper sequence: PP1S86_153V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GLYMA14G05430.1 (Glycine max), 5'ss of exon 9
AGCATAACGGAGTATGAAGAGCATGAAAAGAGGGCATGGAGTGTGGATTTTTCACGAACTGATCCCACTATGTTAGTCTCGGGAAGCGATGATGGCAAGgtgatttgttgaaatgttgtgattttatcactcaagtaact----gatggaccttcgtttgacaaggccccttaaactggaaggtagtttttgggcttctgcatcaaggatcgaagcgaatgtgtagttgatcctgaagctttttgcattgtttcttgcag
||  ||| ||| |||||||||||||||||| | ||||||||||| ||||||||| |||| || ||| ||||| | || || || ||||||||  | |||||  ||     |  | ||  ||  || |    |||||  |      |||   ||    ||  |||  |   | |||    ||    | |||  |  || |                                                             
AGTTTAATGGAATATGAAGAGCATGAAAAGCGTGCATGGAGTGTTGATTTTTCAAGAACAGACCCCTCTATGCTTGTATCTGGTAGCGATGACTGTAAGgtacttgaaacatttatttggaagtttttgtgcaagtttccctaaaatgcttctgtaatttccaatacttttgaaatgaaaatcatgctttctgaattat-------------------------------------------------------------

upper sequence: PP1S86_153V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: Vv12s0059g01420.t01 (Vitis vinifera), 5'ss of exon 9
AGCATAACGGAGTATGAAGAGCATGAAAAGAGGGCATGGAGTGTGGATTTTTCACGAACTGATCCCACTATGTTAGTCTCGGGAAGCGATGATGGCAAGgtgatttgttgaaatgttgtgattttatcactcaagtaactgatggaccttcgtttgacaaggccccttaaactggaaggtagtttttgggcttctgcatcaaggatcgaagcgaatgtgtagttgatcctgaagctttttgcattgtttcttgcag
||  | | ||| |||||||||||||||||  ||||||||||||| ||||||||||| || || ||| | | | | || || || || |||||| | |||||   |||  |||   ||   ||  | | |  |||       ||  | |||  ||    |||      | | ||   |     | |||          ||  |  |  |||  |                                           
AGTGTGATGGAATATGAAGAGCATGAAAAACGGGCATGGAGTGTTGATTTTTCACGCACAGAACCCTCAAGGCTTGTATCTGGCAGTGATGATTGTAAGgta--ttgcagaacacttagtatactttaaaccaa-------atctatcttgattgcttaag------tgatctaagataccatgtttaattgctaaaatagaaaaatgaaatgg------------------------------------------

upper sequence: PP1S86_153V6.2 (Physcomitrella patens), 5'ss of exon 9
lower sequence: Vv10s0523g00030.t01 (Vitis vinifera), 5'ss of exon 9
AGCATAACGGAGTATGAAGAGCATGAAAAGAGGGCATGGAGTGTGGATTTTTCACGAACTGATCCCACTATGTTAGTCTCGGGAAGCGATGATGGCAAGgtgatttgttgaaatgttgtgattttatcactcaagtaactgatggaccttcgtttgacaaggccccttaaactggaaggtagtttttgggcttctgcatcaaggatcgaagcgaatgtgtagttgatcctgaagctttttgcattgtttcttgcag
||  | | ||| || || |||||||||||| | ||||||||||| ||||||||||| ||||| ||  | ||| | || || || || |||||  |||||||     |||| ||| |||  || |           |     ||||| | | || |||    | |   || |||| |   |   | |     |||    | | || ||    |   ||||  |                                  
AGTGTGATGGAATACGAGGAGCATGAAAAGCGAGCATGGAGTGTTGATTTTTCACGCACTGAACCTTCAATGCTCGTATCCGGCAGTGATGACTGCAAGgta----gttggaat-ttgaaatct----------atgggaaatggaacattgtgtgatcttgacatatacactgaagattgactata----ttccatgt-atgggtca---catgtgtgggg----------------------------------

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|100399476|gb|BY972738.1|BY972738
EST:     TTTCACGAACTGATCCCACTATGTTAGTCTCGGGAAGCGATGATGGCAAG                         GTGAAGATATGGTGTACGAGGCAAGAGTCAAGCGTGATAAATATAGATATG
genomic: TTTCACGAACTGATCCCACTATGTTAGTCTCGGGAAGCGATGATGGCAAGgtgatttgtt ... tttcttgcagGTGAAGATATGGTGTACGAGGCAAGAGTCAAGCGTGATAAATATAGATATG