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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga...

Basic information

species Physcomitrella patens
transcript PP1S207_2V6.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: LOC_Os12g02810.1 (Oryza sativa), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtg-tgaactctcccccactctatca---tgtctac-------tctgaa-aatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaatt---caaatga-------------------------------------------------------------------
|| || || || |||| ||| || ||||| ||  |||| || || |||||||| || ||||| || ||||| |||||||||||||| || ||||||||||||  ||  |||       || | | |   | |||||       |||||  |  | | | ||   |  || | ||         || ||    |  |  | || ||   ||| | |                                                                   
TTTGGTCTGGCAAAAGCTGGCCCAGAAGGCGATCAAACCCATGTATCAACACGGGTGATGGGAACATATGGTTATGCTGCCCCTGAATACGTGATGACTGgtactgtcctcgttttatcttttttaaattttctacatttttttctgagtagcgttgttacccttcatcaaaatgtgaccaggttatttgtcaaaaagaaaagtttaccaagtaatatgcaagtatgcagtttctgttttgcccttgcaatttcatctgatgtatatatacctattgggcag

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: LOC_Os11g02830.1 (Oryza sativa), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccag-atcacttttcttttttacg-tatgatcataaattcaaatga-----------------------------------------------------------------------
|| || || || |||| ||| || ||||| ||  |||| || || ||||| || || ||||| || ||||| |||||||||||||| |||||||||||||||    ||||||| | | | |||| | | ||   |        | |    |  |    ||  | | |   |||  | |   | ||| || ||| |  | | |                                                                       
TTTGGTCTGGCAAAAGCTGGCCCAGAAGGCGATCAAACCCATGTATCAACTCGGGTGATGGGAACATATGGTTATGCTGCCCCTGAATATGTGATGACTGgt----actctcctc-attttatcttttttaagttttcttcattttttttttctgaatagcgttattacccttcatcaaaatgtgaccagaaagtttactaagtgatatgcaagtatgcagtttctgttttgcccttgcaatttcatctgatgtatatatacctattgggcag

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: LOC_Os09g19700.1 (Oryza sativa), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatg-tctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga
|| ||||| || |||||||| |||| ||| |||||||||||||| || || || || ||||| || ||||| ||||| || || |||||||| ||||| |||  |  ||    |   |   | || | |  ||  |      | ||   ||         | | |  |   |     |   |    | ||||||||||| |
TTTGGGCTTGCCAAAGATGGCCCTGTAGGTGACAAAACTCACGTGTCTACTCGAGTAATGGGAACATATGGTTATGCAGCTCCGGAGTATGTTATGACAGgtaagtgcttcatcagtcatcaccagggttgacgttaccgccggta-accgcgggggtacggtaatataaataccgcagtaacctccttaaattcaaataa

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GRMZM2G007283_T01 (Zea mays), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatgtctact--ctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga--
|| || || || |||| ||| |||||||| ||  | || || || |||||||| || ||||| ||||| || |||||||||||||| ||||||||||| |||      ||  | |   |     |||  |  |  ||| |  |  ||  |  | |  || |   || |||   | |  || |    ||     | || |     
TTTGGCCTGGCAAAAGCTGGCCCTGAAGGTGATCAGACCCATGTATCAACACGGGTGATGGGAACCTACGGTTATGCTGCCCCTGAATATGTGATGACCGgtact--ttcctcactgtttgtatatgcttggtgtctgcatttcttagaagatatcgtctaa--cagtttgggtatgaacttcatgtcgattttccagacactg

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GRMZM2G099754_T04 (Zea mays), 5'ss of exon 5
------------------------TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga
                        || || || || |||||||| |||||||| ||  | || || || || ||||| || ||||| ||||| || |||||||||||||| ||||||||||| |||                                                                                                  
GATTATACTGCCAAACTGTCTGACTTTggcctcgcaaaagatggccctgaaggtgatcagacgcatgtgtcgacacgggtgatgggaacctacggttatgctgcccctgaatatgtgatgaccggta-------------------------------------------------------------------------------------------------

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GRMZM2G099754_T01 (Zea mays), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga--
|| || || || |||||||| |||||||| ||  | || || || || ||||| || ||||| ||||| || |||||||||||||| ||||||||||| |||     |    || |  | | |  | | | ||  | |  ||   |       |       |||  |  || ||     ||||| |   |  | ||||    
TTTGGCCTCGCAAAAGATGGCCCTGAAGGTGATCAGACGCATGTGTCGACACGGGTGATGGGAACCTACGGTTATGCTGCCCCTGAATATGTGATGACCGgtactttcctctcctcgttgt-ttgtatatgcttggtatttgggtttcttagatgatggcgtcatctaactgttcgg-atatgaactccatgttaaatttcc

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GLYMA05G36500.2 (Glycine max), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtga-actctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga
|| || || || || ||||| ||    || ||| |||| || ||||||||||| || |||||||| ||||| |||||||| ||||||||||| |||||||||| |  ||||    | | |  ||  ||  |  | |        | |      || ||   |  |    | | |  ||  |   |  | || | ||| |  
TTTGGCCTTGCAAAGGATGGTCCGATGGGGGACCAAACCCATGTTTCAACACGAGTAATGGGCACATATGGATATGCTGCTCCTGAGTATGTCATGACTGgtgagttactcaaagctattg-atgctgatttttttcctttcatttttctaatttctcagaaatatggatttatcataaatgataaaaaaagtgcaattct

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GLYMA08G03070.1 (Glycine max), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatc-atgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaa--ttcaaatga--
|| || || || || ||||| ||    || ||| |||| || ||||||||||| || |||||||| ||||| || ||||| ||||||||||| |||||||||| |     | ||| |  ||||  |||   | | |    ||   ||  |   |||  ||||  |  |      || |   | ||| | |||  | ||| |    
TTTGGCCTTGCAAAGGATGGTCCGATGGGGGACCAAACCCATGTTTCAACACGAGTAATGGGCACATATGGATACGCTGCTCCTGAGTATGTCATGACTGgtgag----ttacccgaagctattgatggtgaatttttccatttcatttctaatttctcagaa-atatggagaattcataaacgataaaaaaggtgcaattactc

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GLYMA19G02360.1 (Glycine max), 5'ss of exon 4
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactct-cccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttac--gtatgatcataaattcaaatga
|| || || || |||||||| ||||| || || || || || || || ||| | |||||||| || ||||| |||||||| |||||||||||||||||||||| |   |   ||  |  | |  | | || ||| | ||  |    | |  |   |     |  |    |||   |  |     | ||   |||||   |   
TTTGGACTTGCCAAAGATGGTCCTGAGGGGGAGAAGACACATGTATCTACAAGAGTTATGGGAACATATGGTTATGCTGCTCCTGAGTATGTGATGACTGgtgagttttgagccttctttattccttttcaacttttaatgtttcttaaacttaatatataactaagactctagatagctaaagttatttaaaatttgca---

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GLYMA09G40650.1 (Glycine max), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga---
|| || ||||| ||||  |||||  |||| ||  |||| || || || || || || ||||| |||||||| |||||||||||||| ||||| ||||||||| ||  || |       || | ||||  || | || ||    |   | |     | || ||  |||      || |  |   || | || || |    |   
TTTGGACTAGCTAAAGCAGGACCACAAGGTGATGAAACCCATGTATCTACCCGAGTCATGGGTACCTATGGTTATGCTGCCCCTGAATATGTAATGACTGgtatgtcctttgtttt--tcaaacatgcttaatttgtaagaaatgaaatggaaactacaaattgcttgaaagcttgaacttccataa-aagttgacggtactc

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GLYMA09G37580.1 (Glycine max), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtat--gatcataaattcaaatga
|| || || || |||||||| |||||||| || || || ||| | |||||| | || ||||| || ||||| ||||| || ||||| |||||||||||||||| |    ||     | | | |  |   |   ||  | |   |   || |  || |  | ||    ||  || | || | |  |||  |  |    | || 
TTTGGACTCGCCAAAGATGGTCCTGAAGGGGAAAAGACACACATATCAACAAGAGTCATGGGAACATATGGTTATGCAGCTCCTGAATATGTGATGACTGgtgagtttcctttttaattttgtgtttcattaacttcagactttgcaacatgatt-caggctctagattgcttatgacatctcggattgtgtacattattg-

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GLYMA18G49060.1 (Glycine max), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctat-catgtctactctgaaaatgctatgacgtcttt-----tccagatcacttttcttttttacgtatgatcataaattcaaatga
|| || || || |||||||| |||||||| || || || ||| | || ||  | || ||||| || ||||| |||||||| ||||||||||| |||||||||| ||   ||       | | |   |   ||   | | | |  ||  || |  ||     || ||||  ||  |    | |  | ||     || |||       
TTTGGACTCGCCAAAGATGGTCCTGAAGGGGAAAAGACACACATATCTACCAGAGTCATGGGAACATATGGTTATGCTGCTCCTGAGTATGTCATGACTGgtgagattcctttttatttttgtgtttcattaacttcagacttttactacatggttcaggctctagattgctaatggcgtct-tggatttgtgtatatttg-----

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GLYMA18G45200.1 (Glycine max), 5'ss of exon 5
-TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga----
 || || ||||| ||||  |||||  |||| ||  |||| || || || || || || ||||| || ||||| |||||||||||||| ||||| ||||||||| ||| || |       || | ||||   | | || ||    |   | |     | || ||  |||      || |   |    ||||||     |||     
TTTTGGACTAGCTAAAGCAGGACCACAAGGTGATGAAACCCATGTATCCACCCGAGTGATGGGTACATATGGTTATGCTGCCCCTGAATATGTAATGACTggtatgacctttgtttt--tcaaacatgctcaatttgtaagaaatgaaatggaaaatacaaattgcttgaaagcttga---acttccataaaagttgatggtact

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: GLYMA19G02730.1 (Glycine max), 5'ss of exon 4
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgt--gtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga
|| ||||| ||  ||||||  || |  ||||| |||||||| ||||| ||    || ||||| ||  | |||||||| |||||||||||||||||||| |||  ||   |||||   ||    ||  |||  |  |  |   | ||||  | | | |  || | || |       |||| | |    | ||  |    | | 
TTTGGGCTTGCCCAAGATGCTCCAGTGGGAGATAAAACTCATGTTTCCACTGAAGTAATGGGAACACAAGGCTATGCAGCCCCTGAGTATGTGATGACGGgttagtatgctctcaaacatctcattttgttcaaccaaatgttactatt-catgtgtagcata-caatcacaagctttatgaaaatacctagctagttaggg

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: AT5G01020.1 (Arabidopsis thaliana), 5'ss of exon 4
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga
|| ||  |||| |||| ||||||  | || ||  |||| || || ||||| || |||||||| || ||||||||||||||||| || ||||||||||||||| ||| ||       |       |||| | |  |  || |  | |       |    | |  |  ||       ||      |   |   ||   | | 
TTTGGCTTAGCTAAAGCTGGACCCCAGGGTGATGAAACCCATGTATCAACTCGAGTTATGGGTACTTATGGCTATGCTGCCCCAGAATATGTGATGACTGgtatgacctgcataatatagcgagatgtatcccattcaacttattttcttagatgcatacacaatcttgacgagctatcctgcaatgtcttttttcacgg

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: AT3G28690.1 (Arabidopsis thaliana), 5'ss of exon 4
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgt--gtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga
|| ||||| || |||||||  || || |   | ||| | ||||| ||||| || || ||||| || ||||| |||||||||||||| ||||| |||||||||  || | || ||    |||      | | |  | |    ||  ||    |   |||  |    ||||     |||||  ||||| ||| |          
TTTGGGCTTGCAAAAGATGCTCCAGACGAGAAAAAATCCCACGTATCAACCCGAGTCATGGGAACTTATGGTTATGCTGCCCCTGAATATGTAATGACTGgtaagtcagctatcttgaactt----gtttttggttttcgcattatagattgagcttttga----acttagaagtttta-atatgaacatcag---------

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: Vv14s0108g00380.t01 (Vitis vinifera), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga-----
|| || || || ||||| || || |||||||| || || || || || || ||||| |||||||||||||||||||| |||||||||||||||||||| ||||   || ||     |  || ||||  ||| | | |  ||  | |||| | | |         || || |     |  ||          | | | |       
TTTGGACTTGCCAAAGACGGTCCAGAAGGAGATAAGACACATGTATCTACTCGTGTAATGGGCACCTATGGCTATGCAGCCCCTGAGTATGTGATGACAGgtgactacactt----aaactctcattactatttttattatttt-tgacatttctgtggctatgctcttgtgacccatctaattctgctcctcctagttttgcca

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: Vv01s0026g01620.t01 (Vitis vinifera), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcc--cccactctatcatgtctactctgaaaa-tgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga
|| || || || |||||||| || || ||||| || ||||| || || || ||||||||||| || ||||| |||||||||||||| ||||||||||| |||  || |   |     |    |   || |  |  |  |||| ||   |  | | ||    | ||||  || | | || |  | |   ||| || ||   |  
TTTGGACTTGCTAAAGATGGTCCCGAGGGAGATAAGACTCATGTATCTACCCGTGTTATGGGAACTTATGGATATGCTGCCCCTGAATATGTGATGACAGgtaagagcatgcgtattcggctttcaatattgagccaaaaaaatgaactctctttttaaagaaatcatattccctgttgattt-tatccattaaatctggt--

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: Vv11s0065g00470.t01 (Vitis vinifera), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtg------tgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttt-tcttttttacgtatgatcataaattcaaatga
|| ||||| || || |||||||||   |||||| | || || || ||||||||||| |||||||| ||||| ||||| || ||||||||||| ||||||||||      |||| |  |    | |  |   |   | |  || ||  | | |    ||    | | | ||||   ||||||  |   |  |  |  | || |     
TTTGGGCTTGCAAAGGATGGACCTATGGGAGACCAGACCCATGTGTCAACACGTGTGATGGGCACATATGGATATGCAGCTCCTGAGTATGTAATGACTGgtgagtctttgaattgccaaaaattgcact-taattgccttgtaagggtt-tcttttccccacaaaaacactaaatcttttccattaaataaaagtatttta-----

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: Vv04s0008g02070.t01 (Vitis vinifera), 5'ss of exon 4
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga
|||||||||||||| || || || ||||| ||| | |||||||| ||||| ||  | ||||||||  |||||||||| || ||||||||| | |||||||||   || | |          ||||   | |||  ||||||    |||   ||   ||  |  |  |     || ||  ||   | |  | |||  |   
TTCGGGCTAGCGAAGGACGGTCCAGAAGGCGACGAGACTCACGTATCAACCCGAATAATGGGCACACATGGCTATGCCGCTCCTGAGTATATCATGACTGgta--aattttg---------atcaaaac-acttagaaaatctcctgagacctaaccccaaaaatctagtacttcta-atacttttaatacttctcag--

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: EFJ22709 (Selaginella moellendorffii), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga
||||| || ||||||||||| || ||||||||||| || || ||||| |||||  | ||||| || || ||||| || || || ||||| ||||||||||||  |        | ||    |  |     | | ||| | | ||   ||   ||     ||||     | | |||     |                   
TTCGGCCTCGCGAAAGATGGCCCGGAAGGAGACAAGACGCATGTTTCCACACGAATCATGGGAACTTACGGCTACGCAGCTCCCGAGTACGTGATGACTGgtaag------ttcacaaagaaagaaaaaaaat-tgagagttcttgaac---ttaaaaggatcgtacctttgtttcctccag------------------

upper sequence: PP1S207_2V6.1 (Physcomitrella patens), 5'ss of exon 5
lower sequence: EFJ19239 (Selaginella moellendorffii), 5'ss of exon 5
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga
||||| || ||||||||||| || ||||||||||| || || ||||| |||||  | ||||| || || ||||| || || || ||||| ||||||||||||  |        | ||    |  |     ||| ||| | | ||   ||   ||     ||||     | | |||     |                   
TTCGGCCTCGCGAAAGATGGCCCGGAAGGAGACAAGACGCATGTTTCCACACGAATCATGGGAACTTACGGCTACGCAGCTCCCGAGTACGTGATGACTGgtaag------ttcacaaggaaagaaaaaaact-tgagagttcttgaac---ttaaaaggatcgtacctttgtttcctccag------------------

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|162196859|gb|FC374733.1|FC374733
EST:     ACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTG                         GGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
genomic: ACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactc ... ttctttgcagGGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
EST: gi|162259083|gb|FC436403.1|FC436403
EST:     ACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTG                         GGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
genomic: ACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactc ... ttctttgcagGGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
EST: gi|162259082|gb|FC436402.1|FC436402
EST:     ACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTG                         GGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
genomic: ACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactc ... ttctttgcagGGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
EST: gi|162154036|gb|FC330271.1|FC330271
EST:     GCTGCCCCTGAGTATGTGATGACTG                         GGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
genomic: GCTGCCCCTGAGTATGTGATGACTGgtgtgaactc ... ttctttgcagGGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
EST: gi|162204620|gb|FC380860.1|FC380860
EST:     ACGTGTTATGGGCACCTAGGGCTATGCTGCCCCTGAGTATGTGATGACTG                         GGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
genomic: ACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactc ... ttctttgcagGGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
EST: gi|208347466|gb|DC925378.1|DC925378
EST:     ACGTGTTATGGGCACCTATGGNTANGCTGCCCCTGAGTATGTGATGACTG                         GGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
genomic: ACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactc ... ttctttgcagGGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
EST: gi|208361646|gb|DC950334.1|DC950334
EST:     ATGCTGCCCCTGAGTATGTGATGACTG                         GGCATTTAACATTTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
genomic: ATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactc ... ttctttgcagGGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
EST: gi|162204621|gb|FC380861.1|FC380861
EST:     ACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTG                         GGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
genomic: ACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactc ... ttctttgcagGGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
EST: gi|162270726|gb|FC446339.1|FC446339
EST:     ACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTG                         GGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
genomic: ACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactc ... ttctttgcagGGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
EST: gi|37827569|gb|BJ585581.1|BJ585581
EST:     CTATGCTGCCCCTGAGTATGTGATGACTG                         GGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG
genomic: CTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactc ... ttctttgcagGGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 35 (downstream exon)
Score: 42

TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactc ... ttctttgcagGGCATTTAACATCTAGAAGCGACGTGTACAGCTTTGGCGTGGTGTTGCTAGAGATGTTGACAGGGCGAAGGTCGGTGGATAAAAATAGACCAAGTGGTGA




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Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCGGGCTAGCGAAAGATGGACCTGAAGGAGACAAAACTCACGTTTCAACACGTGTTATGGGCACCTATGGCTATGCTGCCCCTGAGTATGTGATGACTGgtgtgaactctcccccactctatcatgtctactctgaaaatgctatgacgtcttttccagatcacttttcttttttacgtatgatcataaattcaaatga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC