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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTACACCGATCTTGCCACCATTTATGAACGTGCTGGACGTATTGAGGGCCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttagcctcaaactcttgctgaatttttgtaagattagcgctgccgattagcttttcctttagttctttttgaccgcttacaagtgccagtcgccctactattttctttctgcatgaatgcctttcttttgagcctctaatcttcttctttttaatctcttttgtccctacgttctccgcag

Basic information

species Physcomitrella patens
transcript PP1S100_117V6.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S100_117V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: GLYMA20G24070.1 (Glycine max), 5'ss of exon 11
ATGTACACCGATCTTGCCACCATTTATGAACGTGCTGGACGTATTGAGGGCCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttagcctcaaactc-ttgctgaatttttgtaagattagcgctgccgattagcttttcctttagttctttttgaccgcttacaagtgccagtcgccctactattttctttctgcatgaatgcctttcttttgagcctctaatcttcttctttttaatctcttttgtccctacgttctccgcag
||||| || |||||||| || ||||||||||| |||||  | |||||||| |||||||| |||||||| || || |||||| |||| |||||||| || ||||||   |     ||  |  |     |  ||   |||   |       | || |   | |   || |  |  | |  |                                                                                                             
ATGTATACAGATCTTGCAACAATTTATGAACGAGCTGGGAGAATTGAGGGGCGTAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCCAATGATGgtaatgaaatatagaagttaatcagctatcttgcataatggttttaacactgaatgattatattttgaacttctgtacag------------------------------------------------------------------------------------------------------------

upper sequence: PP1S100_117V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: GLYMA10G42940.3 (Glycine max), 5'ss of exon 10
ATGTACACCGATCTTGCCACCATTTATGAACGTGCTGGACGTATTGAGGGCCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttagcctcaaactcttgctgaatttttgtaagattagcgctgccgattagct--tttcctttagttctttttgaccgcttacaagtgccagtcgccctactattttctttctgcatgaatgcctttcttttgagcctctaatcttcttctttttaatctcttttgtccctacgttctccgcag
||||| || |||||||| || ||||||||||| |||||  | |||||||| |||||||| |||||||| || || |||||| |||| |||||||| || ||||||   |    |||  || | | |   | ||| | |||     ||    | |   |  ||   ||| |  ||| |  || |                                                                                                          
ATGTATACAGATCTTGCAACAATTTATGAACGAGCTGGGAGAATTGAGGGGCGTAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCCAATGATGgtaatgaaatatacaagttcat-cagctatcttgcatgatggtttcttaacactgaatgattatattttgaacttctgtacag----------------------------------------------------------------------------------------------------------

upper sequence: PP1S100_117V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: GLYMA09G38110.1 (Glycine max), 5'ss of exon 10
ATGTACACCGATCTTGCCACCATTTATGAACGTGCTGGACGTATTGAGGGCCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattt--tagcctcaaactcttgctgaatttttgtaagattagcgctgccgattagcttttcctttagttctttttgaccgcttacaagtgccagtcgccctactattttctttctgcatgaatgcctttcttttgagcctctaatcttcttctttttaatctcttttgtccctacgttctccgcag
||||| || |||||||| || || || |||||||||||| | |||||||| || ||||| |||||||| || || |||||| |||| ||||| || || ||| ||    ||   |  ||   |  | |   |  || |  ||  || ||  | |||    |  |   | ||| || |||| |   |  |                                                                                                    
ATGTATACAGATCTTGCAACAATATACGAACGTGCTGGAAGAATTGAGGGGCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATGgtgatgaaatattattgaatcttatcagctatcatgcataat--gcactctcaatt---ctgactgattgtttttcttgaacttctgtacag-------------------------------------------------------------------------------------------------

upper sequence: PP1S100_117V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: GLYMA18G48280.1 (Glycine max), 5'ss of exon 10
ATGTACACCGATCTTGCCACCATTTATGAACGTGCTGGACGTATTGAGGGCCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaatttta-gcctcaaactcttgctgaatttttgtaagattagcgctgccgattagcttttcctttagttctttttgaccgct-tacaagtgccagtcgccctactattttctttctgcatgaatgcctttcttttgagcctctaatcttcttctttttaatctcttttgtccctacgttctccgcag
 |||| || |||||||| || || || |||||||||||| | |||||||| || ||||| |||||||| || || |||||| |||| ||||| || || ||| ||   |        | ||||    |  | |  |    |  || ||  | |||  ||      ||| || | ||  ||  || ||||                                                                                                    
-TGTATACAGATCTTGCAACAATATACGAACGTGCTGGAAGAATTGAGGGGCGAAAAGGCTCTATTACACAAATTCCAATTCTAACCATGCCTAATGATGGtgatgaaatattattgaatcttatc-agctatcatgcattatgcactctcaatt--ctgactgattatttttcttgaacttctgtacaga--------------------------------------------------------------------------------------------------

upper sequence: PP1S100_117V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: AT1G20260.1 (Arabidopsis thaliana), 5'ss of exon 10
ATGTACACCGATCTTGCCACCATTTATGAACGTGCTGGACGTATTGAGGGCCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttagcctcaaactcttgctgaatttttgtaagattagc--gctgccgattagcttttcctttagttctttttgaccgcttacaagtgccagtcgccctactattttctttctgcatgaatgcctttcttttgagcctctaatcttcttctttttaatctcttttgtccctacgttctccgcag
||||| || |||||||| || ||||||||||| || ||||||||||| ||  | || || || ||||| || ||||| ||  | ||||||||||| ||||||||||||    |   |   ||  || |||    | | || |      |   |||||       ||     | ||| |      |   ||    |||                                                                                            
ATGTATACAGATCTTGCAACTATTTATGAACGCGCGGGACGTATTGAAGGAAGAAAGGGTTCCATTACCCAAATCCCTATCCTGACTATGCCCAATGACGgtaatttt----ttttatcgtttttggattccattcatatcaaatgttttttgattaaacaaagctcataatatttcttgttatt---aaaactcag--------------------------------------------------------------------------------------------

upper sequence: PP1S100_117V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: AT1G76030.1 (Arabidopsis thaliana), 5'ss of exon 10
ATGTACACCGATCTTGCCACCATTTATGAACGTGCTGGACGTATTGAGGGCCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttagc---ctcaaactcttgctgaatttttgtaagattagcgctgccgattagcttttcctttagttctttttgaccgctt-acaagtgccagtcgccctactattttctttctgcatgaatgcctttcttttgagcctctaatcttcttctttttaatctcttttgtccctacgttctccgcag
|||||||| |||||||| || ||||||||||||||||| ||||| || ||  | ||||| || || || || || |||||  | ||||||||||| ||||||||  | | |   || || |   | |  |  || | |    |       |   | |   || |   |   |  | ||||||   || |  ||                                                                                                  
ATGTACACTGATCTTGCAACTATTTATGAACGTGCTGGGCGTATAGAAGGAAGAAAAGGTTCCATCACCCAAATTCCAATCCTCACTATGCCCAATGACGgtaaaatcatctttcttaagccaatccctagattctattttttatcttgagaaaactcaattcttactcgttgttgtttgacaaattgatcag--------------------------------------------------------------------------------------------------

upper sequence: PP1S100_117V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: Vv03s0038g02760.t01 (Vitis vinifera), 5'ss of exon 10
ATGTACACCGATCTTGCCACCATTTATGAACGTGCTGGACGTATTGAGGGCCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttagcctcaaactcttgctgaatttttg-taagattagcgctgccgattagcttttcctttagttctttttgaccgcttacaagtgccagtcgccctactattttctttctgcatgaatgcctttcttttgagcctctaatcttcttctttttaatctcttttgtccctacgttctccgcag
||||| || ||||| || || |||||||||||||||||||||||||| || || || || || ||||| || ||||||||||||||||||||||| || |||||| | |  |   | | | |  |||  |  || | ||| |  | |     | | ||  | |  | |  |     |||    | |||                                                                                                    
ATGTATACTGATCTGGCGACGATTTATGAACGTGCTGGACGTATTGAAGGACGGAAGGGTTCCATTACACAAATCCCAATTTTAACTATGCCCAATGATGgtaatgtcaagcatcatc-catattgatctagtggtgagaatttctcattatagtggcactacactca-ctgaacctgatt-ttcacag---------------------------------------------------------------------------------------------------

upper sequence: PP1S100_117V6.1 (Physcomitrella patens), 5'ss of exon 10
lower sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 10
ATGTACACCGATCTTGCCACCATTTATGAACGTGCTGGACGTATTGAGGGCCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttagcctcaaactcttgctgaatttttgtaagattagcgctgccgattagcttttcctttagttctttttgaccgcttacaagtgccagtcgccctactattttctttctgcatgaatgcctttcttttgagcctctaatcttcttctttttaatctcttttgtccctacgttctccgcag
||||| || |||||||| || |||||||| |||||||||||||| || || || ||||| || || || || || || |||||||| ||||| || || |||||| ||||| |       || | | || | ||     |   | ||||  || || | ||    ||||        |   | |  ||           || | |||||| | ||  |  |                                                                  
ATGTATACTGATCTTGCAACAATTTATGAGCGTGCTGGACGTATAGAAGGGCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATGgtaatgttagcat-------tttcaggatgtctggctattcttccctgcacatcagttcttgtaatagtgaacagacattacctgaaa-----------ccaattattttttgtccaccag------------------------------------------------------------------

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|208395424|gb|DC924478.1|DC924478
EST:     CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACG                         ATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
genomic: CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttag ... ttctccgcagATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
EST: gi|162269043|gb|FC445535.1|FC445535
EST:     CCGTANAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACG                         ATATTACCCATCCCATTCCC
genomic: CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttag ... ttctccgcagATATTACCCATCCCATTCCC
EST: gi|37837091|gb|BJ595099.1|BJ595099
EST:     CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACG                         ATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
genomic: CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttag ... ttctccgcagATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
EST: gi|162153494|gb|FC329380.1|FC329380
EST:     AACTATGCCCAACGACG                         ATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
genomic: AACTATGCCCAACGACGgtaattttag ... ttctccgcagATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
EST: gi|162278566|gb|FC454028.1|FC454028
EST:     CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACG                         ATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
genomic: CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttag ... ttctccgcagATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
EST: gi|162230898|gb|FC406737.1|FC406737
EST:     CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACG                         ATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
genomic: CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttag ... ttctccgcagATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
EST: gi|67698241|gb|BJ958474.1|BJ958474
EST:     GTAAAGGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGGACG                         ATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAG
genomic: GTAAA-GGATCTATTACTCAGATCCCAATTTTAACTATGCCCAAC-GACGgtaattttag ... ttctccgcagATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAG
EST: gi|162209307|gb|FC385227.1|FC385227
EST:     CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACG                         ATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
genomic: CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttag ... ttctccgcagATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
EST: gi|162153495|gb|FC329381.1|FC329381
EST:     CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACG                         ATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
genomic: CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttag ... ttctccgcagATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
EST: gi|162232324|gb|FC408667.1|FC408667
EST:     CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACG                         ATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA
genomic: CCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttag ... ttctccgcagATATTACCCATCCCATTCCCGATCTCACAGGATACATCACCGAAGGTCAGA