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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag

Basic information

species Selaginella moellendorffii
transcript EFJ31718
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: LOC_Os01g54100.2 (Oryza sativa), 5'ss of exon 2
--------------------------GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcat-tgttttggctttttttttc----tttgtgttttgtttctaagctatcgtgttttatgtttgcag------------
                          || ||  | ||||||||||| |||| |||||||||||||||| |||||||||| || || ||||| ||||||| ||||||  |   || | || | || |   |      |||  |  | | | || |     |  ||||||  | ||              
ATAAATATCGTGCTTTCGAATGGTAGGTGGCGCTAAAGTTTGAACATAGAACCAGTAAAGGATGCAACCATGGGCCTCCTTACGAATGGCAGGTTTACAAgtatgtgcctcatgatctgccattatgcatagcaagttgcatgctatatataggtacctgacttttatcatggccatcgtatatacag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: LOC_Os01g54100.1 (Oryza sativa), 5'ss of exon 3
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcat-tgttttggctttttttttct----ttgtgttttgtttctaagctatcgtgttttatgtttgcag------------
|| ||  | ||||||||||| |||| |||||||||||||||| |||||||||| || || ||||| ||||||| ||||||  |   || | || | || |   |      |||  |  | | | || |     |  ||||||  | ||              
GTGGCGCTAAAGTTTGAACATAGAACCAGTAAAGGATGCAACCATGGGCCTCCTTACGAATGGCAGGTTTACAAgtatgtgcctcatgatctgccattatgcatagcaagttgcatgctatatataggtacctgacttttatcatggccatcgtatatacag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: LOC_Os03g57940.2 (Oryza sativa), 5'ss of exon 4
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcat---tgttttggctttttttttctttgtgtt-ttgtttctaagctatcgtgttttatgtttgcag--------------
|||||  | || ||||| ||| |||||||||||||||| |||||||| ||||| || |||||||| ||||||  ||| | |          | |  |  || |  | ||| |||| || | | |    |||  |   |||   ||                  
GTTGCGCTTAAATTTGAGCACCGAAGCAGTAAAGGATGTAACTATGGCCCTCCATACGAGTGGCAGGTTTACCAgtaagaatttcacacaatctatcccttctgatgtttatgttgttctatgtggagtatgatccattaaccttttgtccttttgtaaatag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: LOC_Os05g11140.1 (Oryza sativa), 5'ss of exon 3
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtgttttgtttcta-agctatcgtgttttatgtttgcag-----------------------------------------------------------------------------------
|| ||  | || ||||||||  ||| ||| ||||| ||||| |||||  |||| ||||||||||||||||||| ||| ||  |||| | |    ||||| |  | |  |    ||||| |  |   | |      | |||  ||                                                                                     
GTGGCAATAAAATTTGAACATCGAACCAGCAAAGGCTGCAATTATGGAGCTCCCTATGAGTGGCAAGTTTACAAgtaagtgacattttgtccattttttctggcatgatcaactgtttttttattcagcacaacctttgtccgccttgctattctgtacacattttgatggcagctggcattctagaatgcatactaacattttctttctgtaaacatccatttggcag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 4
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagc-attgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag-------------
||||| |||||| |||| ||  ||| ||||||||| ||||| |||||  | || ||||||||||||||||||  |||||||   | |    |    |||  ||| |    | ||  | |||   || | | ||||  || ||                 
GTTGCATTGAAGCTTGAGCATCGAAACAGTAAAGGGTGCAATTATGGTGCCCCCTATGAGTGGCAAGTTTACCAgtatgtacttaatacagtcatctttcatttgtaccagattattctctgctct-ttgagtttactgattattacctttcctactag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 4
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgta--tgtagcat--tgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag-------------------------
|| |||||||| || || ||| | | |||||| || ||||| ||||| ||||| ||||||||||||||||| | |||  || |  ||  |   |||  | ||    |||| | | |  | |   |     |||    | ||    |                            
GTAGCTTTGAAATTCGAGCACCGCAACAGTAAGGGTTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaattgcactataataagttgagtattacaatcttagagataggatctcagagactcggacataataaaagttattgtgcaatatcttgattcttgcct

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: GRMZM2G116086_T01 (Zea mays), 5'ss of exon 4
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttt--tttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag----------------------------
||||||||||| ||||| ||| ||| ||| || || ||||| ||||| ||||| ||||||||||||||||| | |||  || |||| | ||          | |   || || | |  |   |   | |   |  | ||| ||  |                             
GTTGCTTTGAAATTTGAGCACCGAAACAGCAAGGGCTGCAATTATGGCCCTCCATATGAGTGGCAAGTTTATAGgtaatta-cattatattaagccgaaagtgtatattatgctcttatagaataattttagggatcatggttataaaaaatgtactctaaacatggtgtatcat

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: GRMZM2G539687_T01 (Zea mays), 5'ss of exon 8
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggc-tttttttttctttgtg----ttttgtttctaagctatcgtgttttatgtttgcag
|  || ||||| || || ||  ||| ||||||||||||||| ||||| ||||| ||||||||||| ||||| | |||||| || |  |  || | | ||| ||| ||||||     ||| ||||| |    | || || | || | |   
GACGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAAgtatgttgc-tcatcctgccatctttgtttttttgtggagactttctttctgactattggtattgtttgctag---

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: GRMZM2G342407_T01 (Zea mays), 5'ss of exon 5
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtg--ttttgtttctaagctatcgtgttttatgtttgcag
|| || ||||| || || ||  ||| ||||||||||||||| ||||| ||||| ||||||||||| ||||| | |||||| || |  |  || | | |||||| | ||     ||| ||||| |    | || || | || | |   
GTCGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAAgtatgttgc-tcatcctgccatgttttttttgtggagactttctttctgactattggtattgtttgctag---

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: GRMZM2G037923_T02 (Zea mays), 5'ss of exon 4
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagc--attgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag-
||||| ||||| || || ||  | | ||||||||||||||| ||||| || || ||||||||||||||||| | |||||| ||  ||  | ||| ||||  |||    || |   | |||||     |   |      |||||||   
GTTGCATTGAAATTCGAGCATCGTAACAGTAAAGGATGCAATTATGGCCCCCCATATGAGTGGCAAGTTTATAAgtatgttgctcatcctgttgtctttcctttgtcgtgggcactatttctttctgactattggcattgtttgctag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: GRMZM2G164265_T03 (Zea mays), 5'ss of exon 4
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtg----ttttgtttctaagctatcgtgttttatgtttgcag
|| || ||||| || || ||  ||| ||||||||||||||| ||||| ||||| ||||||||||| ||||| | |||||| || |  |  || ||| |||| | ||||||     ||| ||||| |    | || || | || | |   
GTCGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAAgtatgttgc-tcatcctgccttcttttctttttgtggagactttctttctgactattggtattgtttgctag---

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: GRMZM2G355274_T01 (Zea mays), 5'ss of exon 4
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtg----ttttgtttctaagctatcgtgttttatgtttgcag
|  || ||||| || || ||  ||| ||||||||||||||| ||||| ||||| ||||||||||| ||||| | |||||| || |  |  || | | ||| || ||||||     ||| ||||| |    | || || | || | |   
GACGCATTGAAATTAGAGCATCGAAACAGTAAAGGATGCAATTATGGCCCTCCATATGAGTGGCAGGTTTATAAgtatgttgc-tcatcctgccatctttgttttttgtggagactttctttctgactattggtattgtttgctag---

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: GRMZM2G116151_T03 (Zea mays), 5'ss of exon 3
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttat-gtttgcag-------------------------------------------------------
|||||  | || ||||||||  ||| ||| ||||| |||||||||||  |||| ||||||||||||||||||| ||| ||  |    || |   |  |||||||  ||  || |      ||  | |   |  || |  | |   |                                                       
GTTGCAATCAAATTTGAACATCGAACCAGCAAAGGTTGCAACTATGGTGCTCCTTATGAGTGGCAAGTTTACAAgtaagtgacggatttgtccttccttttttcactggtttctacaaaaaatttctttggccttgtcatctattgcatgttccaactggaattacgtctgaactttttggccttgtcgtccatcctgcag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: GRMZM2G110085_T01 (Zea mays), 5'ss of exon 1
---------------------------GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtag--cattgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag-
                           ||||| ||||| || || ||  | | ||||||||||||||| ||||| || || ||||||||||||||||| | |||||| |  |||  | ||| ||||  |||    || |   | |||||     |   |      |||||||   
TTATGAATCAATCAATTACCTGAGACAGTTGCATTGAAATTCGAGCATCGTAACAGTAAAGGATGCAATTATGG-CCCCCATATGAGTGGCAAGTTTATAAgtatgttgctcatcctattgtctttcctttgtcatgggcactatttctttctgactattggcattgtttgctag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 4
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggcttttt-------ttttctt---tgtgttttgtttctaagctatcg-tgttttatgtttgcag-----------------------------------
|||||  | |||||||| ||||||| ||| ||||| ||||||||||||||||| |||||||||||||| |||| ||| |||   |  | || |  |||        || ||     |   | || ||| ||| ||   | |||| ||   ||                                       
GTTGCACTTAAGTTTGAGCACAGAAACAGCAAAGGTTGCAACTATGGGCCTCCTTATGAGTGGCAAGTATACAGgtaggtaatctgttctttgtatttaaacaacattatcaagaatacatgttttttttaatcttcagatgttctaatattattatctaattctcacatttgtaatttgacattgataag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: GLYMA04G09080.1 (Glycine max), 5'ss of exon 3
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgt----gttttgtttc----------taagctatcgtgttttatgtttgcag----------------
|| || || || ||||| || |||||||| ||||| ||||| ||||| ||||| ||||||||||| ||||||| ||  ||  || | ||||  |||    || || ||     |||||  ||           | | ||||   || |||  |||||                  
GTAGCCTTAAAATTTGAGCATAGAAGCAGCAAAGGGTGCAATTATGGACCTCCATATGAGTGGCAGGTTTACAAgtgagtt-cactattttttcttcccgttgctctgctggggttttactttatcatggatattaactattaagtgttaactttgcgatgattatatcttgtag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: GLYMA08G47680.2 (Glycine max), 5'ss of exon 3
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttt-----tttttctttgtgttttgtttctaagctat-cgtgttttatgtttgcag-------------------------------------------------
|| |||||||| ||||| ||||| | ||| ||||| || |||||||| ||||| || ||||||||||| |||| ||| || || ||||||  | |        | | | |    | ||  ||||     |   |  | ||| |||||                                                     
GTGGCTTTGAAATTTGAGCACAGGAACAGCAAAGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTGTACAAgtaggt-gctttgtttatgttgcaagagatatgtgtcgacgattgctttcggttatgcacaagatttgtgtttaagtgaaattgcctgagtttttttatttatttaatgttttgttttgtgaaaag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: GLYMA08G47680.3 (Glycine max), 5'ss of exon 1
--------------------------GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttt-----tttttctttgtgttttgtttctaagctat-cgtgttttatgtttgcag-------------------------------------------------
                          || |||||||| ||||| ||||| | ||| ||||| || |||||||| ||||| || ||||||||||| |||| ||| || || ||||||  | |        | | | |    | ||  ||||     |   |  | ||| |||||                                                     
CATTGACTGATTCTTTCGTGTTTCAGGTGGCTTTGAAATTTGAGCACAGGAACAGCAAAGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTGTACAAgtaggt-gctttgtttatgttgcaagagatatgtgtcgacgattgctttcggttatgcacaagatttgtgtttaagtgaaattgcctgagtttttttatttatttaatgttttgttttgtgaaaag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: GLYMA10G44050.1 (Glycine max), 5'ss of exon 3
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag---------------------------------------
|| ||| |||| |||||||| |||| |||||| || || |||||||| ||||| || ||||||||||| |||| ||| ||| | || ||  |    ||| | |   | | | || ||| | |  |||| || ||| || |                                            
GTGGCTCTGAAATTTGAACATAGAAACAGTAAGGGCTGTAACTATGGCCCTCCTTACGAGTGGCAAGTATACAAgtaggtacc-ttcttacg----tttatattaatatatatttttttttaattatcatgatttgtgatcaagtatgtatagctaaagtttgacttttatgttatgtcaaaag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: GLYMA06G09190.1 (Glycine max), 5'ss of exon 3
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgt----gttttgtttc--ta-agctatcgtgttttatgtttgcag----------------
|| || || || ||||| || |||||||| || || ||||| ||||| ||||| ||||||||||| ||||||| ||  ||  || | ||||  |||    || || ||     |||||  ||   ||  | ||    ||  ||  | |||                  
GTAGCCTTAAAATTTGAGCATAGAAGCAGCAAGGGGTGCAATTATGGACCTCCATATGAGTGGCAGGTTTACAAgtgagtt-cactattttttcttcgcgttgctctgctggggttttactttattatggatactaagtgctaactatgccatgattatatcttgtag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: AT2G25760.2 (Arabidopsis thaliana), 5'ss of exon 3
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtgttttgt-ttctaagctatcgtgttttatgtttgcag-------------------------------------------
|| |||||||||||||| || |||| ||| |||||||| ||||||||||| |||||||||||||||||||||| ||  |    || || |    | | |||  || |  | ||  | ||||      ||   |  | |||||  |                                            
GTGGCTTTGAAGTTTGAGCATAGAACCAGCAAAGGATGTAACTATGGGCCACCGTATGAGTGGCAAGTTTACAAgtgagcgttatggtctc--ttgtctttggctctaggattcatcttctgcttgttcaaatagtttgtttataaaaggatgagataactaatgatgctttatcatctgttcgtccag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 3
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag-----------------------------------------------
|||||| | |||||||| || || ||||| || || ||||||||||| |||||  |||||||||| ||||||| ||  || |  | | ||   || | ||| | |   |||||  |   |    |  | ||  || |   |||                                                 
GTTGCTCTAAAGTTTGAGCATAGGAGCAGCAAGGGTTGCAACTATGGTCCTCCACATGAGTGGCAGGTTTACAAgtgggt-gtttcgattctcctgtctttctttcaatgtttcttaaattcatttacctggattgtaggtgcttccttgacttgaaatgtgaaattgacattttacttttattgtgaacag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: Vv06s0004g01090.t01 (Vitis vinifera), 5'ss of exon 3
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgt---agcattgtttt------ggctttttttttctttgtgttttgtttct---aagctatcgtgttttatgtttgcag-----------------------------------------------------------
|| |||||||| || || ||||||| ||| ||||| ||||||||||| ||||| ||||||||||| || |||| ||||||   ||  || ||||      || | |  || | |      ||| |||||   ||   ||     | | |||                                                                 
GTAGCTTTGAAATTCGAGCACAGAAACAGCAAAGGCTGCAACTATGGCCCTCCATATGAGTGGCAGGTGTACAAgtatgtctgaggtttcttttcaaacaggatatgattatttgcaatctttatttctttcaaagaatgagagtctttgtcaaatcacccaaaccctacatttacaatttctatttaaaaatttgttttggttattgttaaacag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: Vv04s0008g00160.t01 (Vitis vinifera), 5'ss of exon 3
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag------------------------------------------
||||| || || ||||| || |||||||| ||||| ||||| ||||| || || ||||||||||||||||||| ||  |  ||||  | |    | || || ||| | || || |  | ||  | || ||   |  ||  |  |                                           
GTTGCCTTAAAATTTGAGCATAGAAGCAGCAAAGGGTGCAATTATGGACCACCATATGAGTGGCAAGTTTACAAgtgag--gcatcttctgatttcttcttatctgtctgattggcatgtattccatggtagctattggatatatatacatgtgatggtattatttgctttctttgatttcctgcag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 4
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag-------------------------
|| || ||||||||||| ||| | |  || ||||||||||| ||||| ||||| |||||||||||||| |||| |||   ||  |  || ||| |   ||| | ||    ||       |||  |||| | ||| || ||||                            
GTAGCATTGAAGTTTGAGCACCGGAATAGCAAAGGATGCAATTATGGCCCTCCTTATGAGTGGCAAGTCTACAAgta---agactaattgtggttaaatttgttttaaatttaaaggcttaaattatcat-tttgatttttgtttttctttctttttcccccttgaaaag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: EDO97462 (Chlamydomonas reinhardtii), 5'ss of exon 3
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtgtt-ttgtttctaagctatcgtgttttatgtttgcag-----------------
|| ||||| || ||||| ||| | ||||||||||| |||||||||||||| || || ||||||   || |||| ||| ||  ||       | |  ||||||||  ||     | |    || |    | | | | |  |                       
GTGGCTTTAAAATTTGAGCACCGCAGCAGTAAAGGCTGCAACTATGGGCCCCCCTACGAGTGGTCCGTGTACAAgtaggtgtcaacaagcagccggtttttttcgctgaacggtcgagcgtacgtagccctttgtgacctcaattacttccttgtgcttgtag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: PP1S66_174V6.1 (Physcomitrella patens), 5'ss of exon 3
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag------------------------------------------------------------------------------------------------
|| ||||| |||||||||||  | ||||| || || ||||| ||||| ||||| || |||||||||||||||| ||  ||    | |    | ||   |  || | | |  |||| | | | |  || |   ||  ||||   |                                                                                                 
GTAGCTTTAAAGTTTGAACATCGGAGCAGCAAGGGTTGCAATTATGGTCCTCCTTACGAGTGGCAAGTTTACAAgtgcgtc---tcgaaccgactcagtcctt-tctatcctttgctacaatgtcattggaattgctgttccaattctagcctcatcgtggaggttatttttgtgctgtcgggttcaatctaattaggtcataaatgttaatggtgatgataatccttggttgttgcgcag

upper sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 5'ss of exon 3
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggcttt----ttttttctttgtgttttgtttctaagctatcgtgttt-tatgtttgcag-------------------------------------------------------------------------
||||| |||||||| || ||  | || ||||| || ||||| ||||| ||||| ||||||||||| ||||||||||  ||  ||   || |  | ||    |||     ||| | | || ||   || | |||  |||   | | || |                                                                          
GTTGCGTTGAAGTTCGAGCATCGGAGTAGTAAGGGCTGCAATTATGGTCCTCCTTATGAGTGGCAGGTTTACACgtgcgtctcaagcttgtaccattgtgatttcactcttgagatgtgattgctag-tgtcgcatttacctctctgtatttcttattttcatcatcaaatgtgattagggcttgtctcctaaccttgatggctggcgcgggtctttctgcag

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|169096720|gb|FE496850.1|FE496850
EST:     AGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACAC                         TACACTTGGTGGCAGCTATGGCGTGCCTCGAGTGCACCATAAGGGGCGTCA
genomic: AGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagca ... atgtttgcagCACACTTGGTGGCAGCTATGGCGTGCCTCGAGTGCACCATAAGGGGCGTCA
EST: gi|169036770|gb|FE443808.1|FE443808
EST:     GGGCCTCCGTATGAGTGGCAAGTTTACAC                         CACACTTGGTGGCAGCTATGGCGTGCCTCGAGTGCACCATAAGGGGCGTCA
genomic: GGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagca ... atgtttgcagCACACTTGGTGGCAGCTATGGCGTGCCTCGAGTGCACCATAAGGGGCGTCA
EST: gi|169104490|gb|FE503774.1|FE503774
EST:     AGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACAC                         TACACTTGGTGGCAGCTATGGCGTGCCTCGAGTGCACCATAAGGGGCGTCA
genomic: AGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagca ... atgtttgcagCACACTTGGTGGCAGCTATGGCGTGCCTCGAGTGCACCATAAGGGGCGTCA

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: 32 (upstream exon), 30 (downstream exon)
Score: 10

GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagca ... atgtttgcagCACACTTGGTGGCAGCTATGGCGTGCCTCGAGTGCACCATAAGGGGCGTCAAGGAGATTACTACGTAATGGTTATGGACATGCTTGGGCCTAGCTTGTGG




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGCTTTGAAGTTTGAACACAGAAGCAGTAAAGGATGCAACTATGGGCCTCCGTATGAGTGGCAAGTTTACACgtatgtagcattgttttggctttttttttctttgtgttttgtttctaagctatcgtgttttatgtttgcag

- - - - - - - - - - - - - - - - AGGATG