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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctcgtccttgcaactcttccattatgccactcaccgtctcatcaatcatttccactgtgcag

Basic information

species Selaginella moellendorffii
transcript EFJ07216
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctcgtccttgcaactcttccattatgccactcaccgtctcatcaatcatttccactgtgcag------------------------------------
 || |||||||| || || |||||||||||||| || || |||||  | || ||||| |||||  ||||||||||||| || |||||||||||||||||||||    ||    || ||    ||     | |    || |||  ||  | | | |   ||   |||||  |                                    
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatctttat--ctaaggaactgcaacattcag-gttccttgattagattatgctgtgatgttattctgattatatttcataatgtgtatttgtcag

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: LOC_Os06g35530.1 (Oryza sativa), 5'ss of exon 7
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttg-------tatacctcgtccttgcaactcttccattatgccactcaccgtctcatca--atcatttccactg--tgcag-----------------------
||| |||||||| || || ||||||||||||||||| ||||||||| | || || || |||||  ||||||| ||||| |||||| | ||||||||||| ||         ||||  | ||  ||   | |  |  | |    || |    ||   | ||   | | ||  |||   ||||                        
CTATCGTGCTCCTGAGCTCATATTTGGTGCAACTGAGTACACAACATCAATTGATATATGGTCTGCTGGATGTGTTCTTGCTGAGCTGCTTCTTGGTCAAgtaagtactcttatattttgtttttatcatttcttaacttgttcagttgtggtagtagcatcttgaattatactaaatgcatcctttcttttgcaattttatcag

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: LOC_Os01g14860.3 (Oryza sativa), 5'ss of exon 7
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgt---tgtatacctcgtccttgcaactcttcc---attatgccactcaccgtctcatcaatcatttccactgtgcag------------------------------
|||  | |||||||| || ||||||||||| || || ||||| ||||| || |||||||||||  ||||||| ||||| |||||  |  |  | || |||||    |  |   |  || |||||  | ||     | | ||    | |||  |         |||  |   || | |                              
CTATAGGGCTCCGGAGCTCATATTTGGTGCCACCGAATACACTACAGCTATTGACATCTGGTCTGCTGGATGTGTTCTTGCTGAACTTATGTTAGGGCAGgtaagcggctggattttctttgcacattttggggaagtttgttgtttaccaccctggactctattgtcgaagt-cggtatgccttacaattgttttctgttcgacag

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: LOC_Os02g14130.1 (Oryza sativa), 5'ss of exon 7
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacc-----tcgtccttgcaactcttccattatgcca--ctcaccgtctca---------tcaatcatttccactgtgcag--------
 ||||||||||| ||||| |||||||| ||||| || ||||| ||| | || || || |||||  |||| || ||||| |||||||| || ||||| |||||| | | |      | |    |   ||| ||   || |  ||   | ||  |  ||           || ||| |    ||| ||         
TTACCGTGCTCCAGAACTGATATTTGGGGCAACCGAATACACGACATCAATTGATATATGGTCAGCTGGGTGTGTTCTTGCTGAGTTGCTCCTTGGCCAGgttatttcctgtttgtggcttctttgactgtttttttttatcaggttgactatagcaaactttgaactaaacatcttttttgtccatttttccag

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GRMZM2G121790_T01 (Zea mays), 5'ss of exon 7
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctcgtccttgcaactc-------ttccattatgccactca-ccgtctcatcaatcatttcc--actgtgcag---------------------------
 ||||||||||| || || |||||||| |||||||| ||||||||| | || || || |||||  ||||||| ||||| |||||| | |||||||| ||||||   |  ||| || ||||   ||       || | |   |  |   | || |||   |||  |  ||   |||   ||                            
TTACCGTGCTCCAGAGCTCATATTTGGGGCAACTGAGTACACAACATCAATTGATATTTGGTCAGCTGGATGTGTTCTTGCTGAGCTGCTTCTTGGCCAGgtta-gtttctcttctttgcttatcccacagatttcctgtggttatgtatccatctgggcaacaaactcagaactaaacacattttttgttaaatgtgattttatcag

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GRMZM2G043350_T02 (Zea mays), 5'ss of exon 6
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctcgtccttgcaactcttccattatgccactcaccgtct-catcaatcatttccactgtgcag----------------------------------------------------------
 || |||||||| || || ||||||||||||||||| ||||||||| | || || || |||||  ||||||| ||||| |||||| | |||||| |||| ||        | ||         ||||   || |||      |  ||| ||||  | ||  ||| ||||  |                                                          
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACTGAATACACAACATCTATTGATATATGGTCAGCTGGATGTGTTCTTGCTGAGCTTCTTCTTAGTCAAgtaagtgctttagttacccgctttctttttttttgcttgcatctctctacatcttttatg-ccattgtgatgccatttcagcagtgaagttatactaatttacttatatttgtttcttgcaatttattag

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GRMZM2G151916_T01 (Zea mays), 5'ss of exon 7
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctcgtccttgcaactcttccattatgccactcaccgtctcatcaatcatttcca-ctgtgcag--------------------------------------------
 ||||||||||| || || |||||||| ||||| || ||||||||| | || || || |||||  ||||||| ||||| |||||| | |||||||| ||||||    |  |  || |  |   | ||||   |     |     ||  |||  | ||| |||| ||| ||||                                            
TTACCGTGCTCCAGAGCTCATATTTGGGGCAACCGAGTACACAACATCAATTGATATTTGGTCAGCTGGATGTGTTCTTGCTGAGCTGCTTCTTGGCCAGgtt----agtttatcttctctgtttttcccacagatttcctgtggttacattta-catatccatctgggcagcaaacttagaactaaacacatttttgttaaaatgattttatcag

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA16G00400.1 (Glycine max), 5'ss of exon 7
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgtt-----------------gtatacctcgtccttgcaactcttccattatgccactcaccgtctcatcaatcatttccactgtgcag--------------
||||||||||||||||||||||||||| || ||||| || ||||| ||||| || || ||||| ||||| || ||  ||||||| ||||||||||| |||||                   | |  |   |  ||   | |    ||||       |  | ||||  |   |||||| |     |  |              
CTACCGTGCTCCGGAACTTATATTTGGGGCCACTGAATATACAACTGCCATAGATATATGGTCAACTGGTTGTGTAATGGCTGAATTACTTCTTGGACAGgtatttggtgcaagaaaaaaatgtgacaaatttttctcatttcatcatttctttgttttctgtcttctttttcattttcctgaagttgaagttgatttgcag

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA12G28730.2 (Glycine max), 5'ss of exon 8
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgt-------tgtatacctcgtccttgcaa--ctcttccattatgccact-caccgtctcat-caatcatttccactgtgcag--------------------
||||||||||||||||||||||||||| || || || || ||||| ||||| || || ||||| ||||| || ||  ||||||| ||||||||||| |||||       | | ||        |  |||   | |  ||||    || | | | || |  |    || ||| || | | | |                    
CTACCGTGCTCCGGAACTTATATTTGGGGCCACCGAATATACAACTGCCATAGATATATGGTCAACTGGTTGTGTAATGGCTGAATTACTTCTTGGACAGgtatttggttctttaaaaaaatgtgacaaatttttctcatttcatcatttctctgttttctgtcttcttttgcattttcctgaagttcaagttgatttgcag

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA02G01220.1 (Glycine max), 5'ss of exon 8
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctc---gtccttgcaactcttccattatgccactcaccgtctcatcaatcatttccactgtgcag-------------
|||  | || || || |||||||||||||||||||| ||||| || ||||| || ||||||||  | || || || || | |||  || | ||||| |||||    | | |    ||   |   | ||| | ||| |   | ||||  |||   |||  |||   | ||                  
CTATAGAGCACCTGAGCTTATATTTGGTGCAACTGAGTACACCACGGCCATTGATATCTGGTCAGCCGGTTGTGTACTTGGTGAACTATTGCTTGGCCAGgtatcttgcttttaagtatgtttgattctgctatt-tagaattcac-atctgtgcaagaattaataatgaatttctgttgttgttag

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA02G01220.3 (Glycine max), 5'ss of exon 8
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctc---gtccttgcaactcttccattatgccactcaccgtctcatcaatcatttccactgtgcag----------------------------
|||  | || || || |||||||||||||||||||| ||||| || ||||| || ||||||||  | || || || || | |||  || | ||||| |||||    | | |    ||   |   | ||| | ||| |   | ||||  |||   |||  |||   | ||                                 
CTATAGAGCACCTGAGCTTATATTTGGTGCAACTGAGTACACCACGGCCATTGATATCTGGTCAGCCGGTTGTGTACTTGGTGAACTATTGCTTGGCCAGgtatcttgcttttaagtatgtttgattctgctatt-tagaattcac-atctgtgcaagaattaataatgaatttctgttgttgttagcctctattccctggt

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA10G01280.1 (Glycine max), 5'ss of exon 8
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctc---gtccttgcaactcttccattatgccactcaccgtctcatcaatcatttccactgtgcag-------------
|||  | || || ||||||||||||||||||||||| ||||| || ||||| || || |||||  |||| || || || | |||  || | ||||| |||||    | | |    ||   |   | ||| | ||  |   | |   | |||   ||   | |   | ||                  
CTATAGAGCACCTGAACTTATATTTGGTGCAACTGAGTACACCACGGCCATTGATATTTGGTCAGCTGGTTGTGTACTTGGTGAACTAATGCTTGGCCAGgtatcttgcttttaagtatgtttgattctgctatatttagaattcacatctgtgcaggaactaataatgaatttctatcgttgttag

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA03G01850.1 (Glycine max), 5'ss of exon 8
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgt---tgtatacctcgtccttgcaactcttccattatgccactcaccgtctcatcaatcatttc--cactgtgcag-------------------------
 ||  | ||||| |||||||||||||| |||||||| |||||||| || || || || |||||   ||| || ||| | |||||| | || || || |||||     ||| |   | | ||       |||  ||    | |||  |  ||| ||  ||| ||    |   |   |                         
TTATAGAGCTCCAGAACTTATATTTGGGGCAACTGAATACACAACTGCTATTGATATGTGGTCTGTTGGTTGTGTTTTAGCTGAGCTTCTCCTAGGACAGgtgagcatatgcaaagacattatgctgtttctttttcttctctcctcccctc-tctctcactttatgaggatttggtccatgacacaatacaatggtgttt

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA18G45960.1 (Glycine max), 5'ss of exon 8
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgt-----tgtata------cctcgtccttgcaactcttccattatgccactcaccgtctcatcaat--------catttccactgtgcag-----------
 ||  | ||||| |||||||||||||||||||| || |||||||| || || || || |||||  |||| || ||  |||||||| | ||| | || || ||     | ||||      | | |||  | || ||| |   |  ||  | |  |  | || |   |        |||||||| |  |              
-TATAGAGCTCCAGAACTTATATTTGGTGCAACAGAATACACAACTGCTATTGATATTTGGTCTGCTGGTTGTGTGTTGGCTGAGCTTCTTGTAGGACATGtgagaatttatattatctctttgtctctccatctcatatgtagtgggaatttctatttctttcgtaaaaattgcatttccattaagttcactgtatgaga

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA09G40150.1 (Glycine max), 5'ss of exon 8
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctcgtccttgcaactcttccattatgccactcaccgtctcatcaatcatttccactgtgcag--------------------------------
 ||  | ||||| |||||||||||||||||||| || |||||||| || || || || |||||  |||| || ||  |||||||| | ||||| || || ||   |       |  || |      |||||     ||      |    |      |||||   |||  |                                 
TTATAGAGCTCCAGAACTTATATTTGGTGCAACAGAATACACAACTGCTATTGATATTTGGTCTGCTGGTTGTGTGTTGGCTGAGCTTCTTCTAGGACATgtgagaatttatattatttctgtctctccatc---tcatatgtagagggaatttctatttcttttgtaaaaattgaatttcctttaagttcacaccgaaagtt

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: AT4G18710.1 (Arabidopsis thaliana), 5'ss of exon 6
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctcgtccttg--caactcttcca----ttatgccactcaccgtctcatcaatcatttccactgtgcag-------------
||||||||| || || || ||||||||||| ||||| ||||||||  | || || ||||||||  |||| || ||||| |||||| | ||||||||||||||     |     ||  |   || ||  | ||      |||    |    |  | |  | |||||   ||| |                 
CTACCGTGCACCCGAGCTCATATTTGGTGCCACTGAGTACACAACTTCTATTGATATCTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTCTTCTTGGTCAGgtaaacaattctttcagtaaccagcttattcaatctccatgtgtatatttgcattaggactcattgtgactatatcatgttcttatgcag

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: Vv14s0060g00600.t01 (Vitis vinifera), 5'ss of exon 8
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctcgtccttgcaactc-ttccatta-tgccactcaccgtctcatcaatcatttccac-tgtgcag--------------
 ||| | ||||| || ||||||||||| |||||||| ||||| ||||| || || ||||||||  | || |||||||||||||||||| | ||||| ||||| |  ||  |  |   |||   || || ||  | |||  || |   |||    | |   ||  |  | ||                 
TTACAGGGCTCCTGAGCTTATATTTGGAGCAACTGAGTACACTACAGCTATTGATATCTGGTCTGCAGGTTGCGTTCTGGCTGAGTTAATGCTTGGACAGgtgg-gtagtttattgatgctggtcgttgcagaagtgcatctaaaattcttggaacttgctttaaaatatgtcttccatttttgtcag

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: Vv07s0005g02100.t01 (Vitis vinifera), 5'ss of exon 8
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctcgtccttgcaactcttccattatgccactcaccgtctcatcaatcatttccactgtgcag--------------------
||| || || || ||||||||||||||||||||||| ||||| |||||||| || ||||||||  | || || ||| |||||||  |||| ||||| || ||     ||    |        ||  | | |||      | |    ||  | ||| || |   ||    ||                    
CTATCGAGCACCTGAACTTATATTTGGTGCAACTGAATACACCACAGCCATTGATATCTGGTCAGCCGGCTGTGTTTTGGCTGAACTACTGCTTGGACAAgtaagcaacacattgtacatggcttatgccttacattttttatttcctttttaat-atgtatgctaataagtacttatcttttgatgtcag

upper sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: Vv12s0028g01810.t01 (Vitis vinifera), 5'ss of exon 7
CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacctcgtccttgcaactcttccattatgccactcaccgtctcatcaatcatttccactgtgcag-----------------------------------------------------
|||||| || || ||||||||||||||||||||||| ||||||||| | || || || |||||  |||| || ||| | |||||| | || || || ||||||     |   |        |   ||   |  | |||   |   || ||    |  |||  | |                                                           
CTACCGGGCCCCAGAACTTATATTTGGTGCAACTGAATACACAACATCGATTGATATTTGGTCAGCTGGTTGTGTTTTTGCTGAGCTTCTACTAGGCCAGgttagtggctgtgagaaatttatattttgttgttaccaagaattttcccagtgttttttttaagttcattatttgcttagttgtatatcatttgcttactttcacaattgcaaatgtttggcag

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|169032924|gb|FE441552.1|FE441552
EST:     TCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAG                         CCTTTGTTCCCAGGAGAGAGCGGCGTGGATCAGCTAGTGGAGATTATAAAG
genomic: TCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacc ... cactgtgcagCCTTTGTTCCCAGGAGAGAGCGGCGTGGATCAGCTAGTGGAGATTAT--A-




















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: 67

CTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCTGGTCGACTGGATGCGTTCTGGCTGAGTTACTTCTTGGTCAGgttgtatacc ... cactgtgcagCCTTTGTTCCCAGGAGAGAGCGGCGTGGATCAGCTAGTGGAGATTATAAAG




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