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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgttattccaaaatgtttttgtttattatttatcttttcctcctcttttttgaattgattcattaatttgttaaatctttgagttgttcaaattttgatgattgggtggttgtatctcaactcgtatgtttacaaattccaaaactaatgagcgatgatttcatctgcag

Basic information

species Physcomitrella patens
transcript PP1S8_312V6.1
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 18
lower sequence: LOC_Os06g45120.1 (Oryza sativa), 5'ss of exon 17
TTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgttattccaaaatgtttttgtttattatttatcttttcctcctcttttttgaattgattcattaattt--gttaaatctttgagttgttcaaattttgatgattgggtggttgtatctcaactcgtatgtttacaaattccaaaactaatgagcgatgatttcatctgcag
 |||||||| ||||| ||||||||||||||||| ||||||||||| || ||| | || ||||| ||  | |||||||||||         | || ||  |||||||    |  | |  | |  ||||  |     || ||||  |  |  || ||   ||  |  |||||  | |  ||  | ||| || ||                                                                  
ATATGACAAGTTCTGTCCATTCTACAAGTCTGTTTGGATGATGCGCAACATTATTCATTTCAATACATTAGCAAATCAGgta--------aatctaacgtgttttt----accactcctttcgtcct--tgaaccttaaattactcaagcaactttgatttgaaatttgaagtatg-aacctgtgaagaatgtt----------------------------------------------------------------

upper sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 18
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 5'ss of exon 17
TTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcg-ttattccaa-aatgtttttgtttattatttatcttttcctcctcttttttgaattgattcattaatt-tgttaaatctttgagttgttcaaattttgatgattgggtggttgtatctcaactcgtatgtttacaaattccaaaactaatgagcgatgatttcatctgcag
 ||||| || |  |||||||||||||| ||||| ||||||||||| || ||| | || ||||||||  | ||||  |||||    ||  || |||||  |||    |  |||   | || |||||       |  |  | |  ||| |    |||  ||  ||| ||||    |  |                                                                                  
ATATGATAAGTATTGCCCATTCTACAAATCTGTTTGGATGATGCGCAACATTATTCATTTCAACACATTGGCAACCCAGgtaaattctcttgttccaggaattcgataatttgccaattttctttagaaaaccaatcct-agctgactagaaaatcatgccaaaactttccaataattgt-------------------------------------------------------------------------------

upper sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 18
lower sequence: GRMZM2G128877_T02 (Zea mays), 5'ss of exon 17
TTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgttattc-caaaatgtttttgtttattatttatcttttcctcct-----cttttttgaattgattcattaa-tttgttaaatctttgagttgttcaaattttgatgattgggtggttgtatctcaactcgtatgtttacaaattccaaaactaatgagcgatgatttcatctgcag
 ||||| || ||||||||||||||||| || || ||||||||||| |||||| | |||||||||||  | |||||||||||  ||||   | |  ||  |  | | |  || ||   ||  | ||  ||||      | ||||| | ||||  |  ||  || |||||  | ||| ||||                                                                                   
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctcaactagcagtacttctgtaatttttgagtaaatgtttttcctgcagattgttttgcaatgatcaaggaaacttattaaacttctga-ttgt-----------------------------------------------------------------------------------

upper sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 18
lower sequence: GRMZM2G128877_T04 (Zea mays), 5'ss of exon 1
---------------------TTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgttattc-caaaatgtttttgtttattatttatcttttcctcct-----cttttttgaattgattcattaa-tttgttaaatctttgagttgttcaaattttgatgattgggtggttgtatctcaactcgtatgtttacaaattccaaaactaatgagcgatgatttcatctgcag
                      ||||| || ||||||||||||||||| || || ||||||||||| |||||| | |||||||||||  | |||||||||||  ||||   | |  ||  |  | | |  || ||   ||  | ||  ||||      | ||||| | ||||  |  ||  || |||||  | ||| ||||                                                                                   
ACAAGTGTTGTTTAATATTAGATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctcaactagcagtacttctgtaatttttgagtaaatgtttttcctgcagattgttttgcaatgatcaaggaaacttattaaacttctga-ttgt-----------------------------------------------------------------------------------

upper sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 18
lower sequence: GRMZM2G421857_T02 (Zea mays), 5'ss of exon 17
TTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgttattccaaaatgtttttgtttattatttatcttttcctcctcttttttgaattgattcattaatttgttaaatctttgagttgttcaaattttgatgattgggtggttgtatctcaactcgtatgtttacaaattccaaaactaatgagcgatgatttcatctgcag
 ||||| || ||||||||||||||||| || || ||||||||||| || ||| | |||||||||||  | |||||||||||  | || ||| | |  |      |  ||| | |   |||  ||    |  ||| |||  ||| | ||     |  | |     |||  ||||  | ||||                                                                           
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctttaatgcccacccccctgttttgtaaccaatcaattatcacaatttattg--ttgctccacctgct-atcattgtattgttttgtcaagatttg--------------------------------------------------------------------------

upper sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 18
lower sequence: GLYMA08G23990.1 (Glycine max), 5'ss of exon 18
TTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgttattccaaaatgtttttgtttattatttatcttttcctcctcttttttgaattgattcattaatttgttaaatctttgagttgttcaaattttgatgattgggtggttgtatctcaactcgtatgtttacaaattccaaaactaatgagcgatgatttcatctgcag
 ||||||||||||||||| |||||||||||||| ||||||||||| || ||| |||| ||| ||| | | ||||||||||| || | ||        || |  |  |    || ||  | ||||  |  | ||     ||   |   |  | |   |  |||| |||     |  |  ||    | | |                                                                   
ATATGACAAATTCTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAGgtatggtggt------gtaaggaatcaggcagtttttggtgttttatttatattagaaaaaagaagaaa--agtccatgtaatcattgg--catctaggttcaagttact-------------------------------------------------------------------

upper sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 18
lower sequence: GLYMA07G00430.1 (Glycine max), 5'ss of exon 18
TTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgttattccaaaatgtttttgtttattatttatcttttcctcctcttttttgaattgattcattaatttgttaaatctttgagttgttcaaattttgatgattgggtggttgtatctcaactcgtatgtttacaaattccaaaactaatgagcgatgatttcatctgcag
 ||||| ||||| ||||| |||||||||||||| ||||||||||| || ||| |||| ||| ||| | | ||||||||||| || | ||        || |  |  |    || ||  | ||||  |  |  |     ||   |   |  | |   |  |||| |||     |  |  ||    | | |                                                                   
ATATGATAAATTTTGCCCCTTCTACAAGTCTGTTTGGATGATGCGCAACATTATCCATTTCTACAATTTGGCAAATCAGgtatggtagt------gtaaggaatcaggcagtttttggtgttttatttatactagaaaaaagaagaaa--agtccatgtaatcattgg--catctaggttcaagttact-------------------------------------------------------------------

upper sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 18
lower sequence: AT1G78900.2 (Arabidopsis thaliana), 5'ss of exon 18
TTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgttattccaaaatgtttttgtttattatttatcttttcctcctcttttttgaattgattcattaatttgttaaatctttgagttgttcaaattttgatgattgggtggttgtatctcaactcgtatgtttacaaattccaaaactaatgagcgatgatttcatctgcag
 |||||||||||||| || ||||||||||| ||||||||||||||||| ||| |||| ||| |||  || || || |||||      | |        |  ||| |   || |||    ||          |    | ||||| ||  |  |  |   ||| |  | | |||||     |     |                                                                      
ATATGACAAATTCTGTCCTTTCTACAAGTCCGTGTGGATGATGCGTAACATTATCCATTTCTACAACCTAGCCAACCAGgtaaataagatg-------agatttatacatactatg---ctaagtggggattaaggtcaattggtttgtctaggtaa-aaacccattaattgttttggatacacag----------------------------------------------------------------------

upper sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 18
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 5'ss of exon 18
TTATGACAAATTCTGCCCATTCTACAAGTCTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgttattccaaaatgtttttgtttattatttatcttttcctcctcttttttgaattgattcattaatttgttaaatctttgagttgttcaaattttgatgattgggtggttgtatctcaactcgtatgtttacaaattccaaaactaatgagcgatgatttcatctgcag
 ||||| || |||||||| ||||||||||| || ||||||||||| |||||| |||| ||| | | | | || ||||||||     || | ||||    | | | | |  |       ||      |   ||||||    ||||   |||   |||| |  |       |||   | ||  |  ||  ||                                                                  
ATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAGgta----cgatgttcctctctctctctttccaccccccctcccccgttttcctttttctctttgacctattg--ttgtcatgt-------ttgccaagatcattgtgtctgta----------------------------------------------------------------

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|162149954|gb|FC326277.1|FC326277
EST:     CTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAG                         GCTGTTGAGCGAGCTGCTGGCTCAGAGGGACAGAAAATCACCTACAACATC
genomic: CTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgt ... tcatctgcagGCTGTTGAGCGAGCTGCTGGCTCAGAGGGACAGAAAATCACCTACAACATC
EST: gi|162154256|gb|FC330387.1|FC330387
EST:     CTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAG                         GCTGTTGAGCGAGCTGCTGGCTCAGAGGGACAGAAAATCACCTACAACATC
genomic: CTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgt ... tcatctgcagGCTGTTGAGCGAGCTGCTGGCTCAGAGGGACAGAAAATCACCTACAACATC
EST: gi|208354120|gb|DC957382.1|DC957382
EST:     CTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAG                         GCTGTTGAGCGAGCTGCTGGCTCAGAGGGACAGAAAATCACCTACAACATC
genomic: CTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgt ... tcatctgcagGCTGTTGAGCGAGCTGCTGGCTCAGAGGGACAGAAAATCACCTACAACATC
EST: gi|37843692|gb|BJ601700.1|BJ601700
EST:     CTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAG                         GCTGTTGAGCGAGCTGCTGGCTCAGAGGGACAGAAAATCACCTACAACATC
genomic: CTGTGTGGATGATGCGTAATATTGTCCACTTCAACACTCTTGCAAATCAGgtttgctcgt ... tcatctgcagGCTGTTGAGCGAGCTGCTGGCTCAGAGGGACAGAAAATCACCTACAACATC