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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTGGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccgacttcatctaagtcttttccaatcaaacttacattactccaaacag

Basic information

species Selaginella moellendorffii
transcript EFJ29161
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ29161 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA19G45140.1 (Glycine max), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTGGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtact-------gccgacttcatctaagtctt---ttccaatcaaactta-cattactccaaacag----------------------------------
| || || || || || ||  | || ||||| || ||||| |||||||| ||||| |||||||||||||| ||||| ||||| |||||||| || |||||||  |       | | | |  ||     | ||   ||    ||| ||| |   ||||| || |                                     
GCGGTGATAATGAGGTTCAGCGCACTATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGTGGAAACATCAAAGTCTTGATGGCAACTAACAGgttttctgatttggctattatatgatgattttcactttagttcatactcagttttactacagatgttcactgttaagtcaagaaagtatctccaagcatg

upper sequence: EFJ29161 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA16G01810.1 (Glycine max), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTGGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccgacttcatc-------taagtcttttccaatcaaacttacattactccaaacag---------------------------------------
|||| ||||| || || ||  | || ||||| || ||||| |||||||| ||||| ||||||||||| || ||||| |||||||||||||| || |||||||   |  || || ||         | |||| |  || ||||  |  || |  | | |  |                                        
GTGGTGACAATGAGGTTCAGCGCACCATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGGGGAAACATCAAAGTTTTGATGGCAACTAACAGgt-tggttgattttataatgaaagcatgtctctaacagtcaacgtgccagttttgccataattatgatgcattcaaaatgcccttttaaattcaattttcg

upper sequence: EFJ29161 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA03G42370.2 (Glycine max), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTGGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccgacttcatc--taagtcttttccaatcaaacttacattactccaaacag--------------------------------------------
|||| || || || || ||  | || ||||| || ||||| |||||||| ||||| |||||||||||||| ||||| ||||| |||||||| || |||||||  | | || ||      ||  |  ||| || |  |  | | | |       || |                                            
GTGGTGATAATGAGGTTCAGCGCACTATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGTGGAAACATCAAAGTCTTGATGGCAACTAACAGgtttt-ctgatttggctattatatgattttcactttagttcatactcagttttactgcagatgttaagtcaagaaagtatctcactttagttcatcaagtg

upper sequence: EFJ29161 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: GLYMA07G05220.1 (Glycine max), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTGGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccgacttcatc-taagtcttttccaatcaaacttacattactccaaacag---------------------------------------------
|||| ||||| || || ||  | || ||||| || ||||| |||||||| ||||| ||||||||||| || ||||| |||||||||||||| || || ||||   |  || || ||  | ||    |  |  |  ||      |   |||| |  |                                             
GTGGTGACAATGAGGTTCAGCGCACCATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGGGGAAACATCAAAGTTTTGATGGCAACTAATAGgt-tggttgattttattgtgagagcatgtctctgcaatgcgagtctttccataatgatgatgcattccaaatgccctttcaaattcattttttcttgtaag

upper sequence: EFJ29161 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: Vv11s0016g00230.t01 (Vitis vinifera), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTGGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccgacttca---tctaagtcttttcca--atcaa--acttacattactccaaacag---------------------------------------------------------------------
|||| ||||  ||||| ||| | || ||||| || ||||| |||||||| ||||||||||||||||| || ||||| |||||| ||||||| || |||||||      ||   ||   | ||  |||| | ||   |  |   |  || | | |   ||                                                                        
GTGGAGACAGAGAAGTTCAACGTACCATGCTTGAAATTGTAAATCAGCTTGATGGTTTTGATGCTCGAGGAAACATCAAAGTTATGATGGCAACAAACAGgttagttggaaaccaatctatagttcttattcactgttgatgtcccacttaattttcaatcctttcttttgccaatgaacttaattgatttgttttttttctttcactatcttaattttgaccttttaaag

upper sequence: EFJ29161 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: Vv09s0002g00170.t01 (Vitis vinifera), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTGGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgta---ctgccgacttcatctaagtcttttcca----atcaaacttacattactccaaacag--------------------------------------
|||| ||||| || || ||  | || ||||| |||||||| |||||||| ||||| ||||||||||| || || || |||||| | ||||| || || ||||      ||   ||||||   | | || ||            ||  || |  |  |||  |                                      
GTGGGGACAATGAGGTCCAGCGTACCATGCTTGAGATTGTAAATCAGCTTGATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggctaccttcattggattattgtctgtgttgctgtgctaccactgttagaaatggttgttggggttatttttctagtaatgcaatatgacaat

upper sequence: EFJ29161 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: PP1S49_256V6.1 (Physcomitrella patens), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTGGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccgacttcatctaagtcttttccaa--tcaaacttacattactccaaacag-------------------------------------------------------------------------------------------------------------------------------
| || || ||||| || ||||| || |||||||| || ||||| || ||||||||||||||||| ||||| || |||||||| |||||||| || ||||||||         |     | ||   || |||  || |   | |  | || | |  ||                                                                                                                               
GAGGTGATAACGAGGTTCAAAGAACAATGCTCGAAATAGTCAACCAACTGGATGGTTTTGATGCCCGTGGTAATATTAAAGTATTGATGGCAACTAACAGgtaagattcctctttcgaatgttagttgcaacgtctatgctgctctgcttcta-tagcctgagtctaggatatgtagatatgtatggcgcaagaatcaatgaaagtagatatacccgcacctgactgattcttgtgaatctagaaagcttagtcaccttacgaaagcaagtgtggtttgtatag

upper sequence: EFJ29161 (Selaginella moellendorffii), 5'ss of exon 8
lower sequence: PP1S152_13V6.2 (Physcomitrella patens), 5'ss of exon 8
GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTGGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtac--tgccgacttcatctaagtcttttccaatcaaacttacattactccaaacag-------------------------------------------------------------------------------------------------------------------------------------------
| || || || || || ||||| || ||||| || || |||||||| || || ||||| ||||||||||| || || ||||| |||||||| ||||| |||||   | ||    | |  ||  | | ||  | | ||   | |  | || |                                                                                                                                                 
GGGGTGATAATGAGGTTCAAAGAACAATGCTTGAAATCGTCAATCAACTTGACGGTTTCGATGCTCGTGGTAATATCAAAGTATTGATGGCAACGAATAGgtaaaatccctcgctgacatatttatcttgaagttaatggtgctctgcttctgtggagttggtgtaggatctgtttgtggacgttgcgtcagaattatcagaggtgtttgtacacccatcaaatcaataatgtaattcaagcgattttagacagctcaaacattcgccttgtaaacgaacatgtggttttttacag

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|169102918|gb|FE505283.1|FE505283
EST:     GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAG                         GCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGTAA
genomic: GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccga ... ctccaaacagGCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGCAA
EST: gi|169057196|gb|FE464174.1|FE464174
EST:     GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAG                         GCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGTAA
genomic: GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccga ... ctccaaacagGCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGCAA
EST: gi|169072906|gb|FE482334.1|FE482334
EST:     GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAG                         GCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGTAA
genomic: GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccga ... ctccaaacagGCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGCAA
EST: gi|169112395|gb|FE510137.1|FE510137
EST:     GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAG                         GCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGTAA
genomic: GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccga ... ctccaaacagGCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGCAA
EST: gi|169076505|gb|FE486068.1|FE486068
EST:     GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAG                         GCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGTAA
genomic: GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccga ... ctccaaacagGCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGCAA
EST: gi|169101241|gb|FE502479.1|FE502479
EST:     GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAG                         GCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGTAA
genomic: GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccga ... ctccaaacagGCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGCAA
EST: gi|169101242|gb|FE502480.1|FE502480
EST:     GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAG                         GCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGTAA
genomic: GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccga ... ctccaaacagGCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGCAA
EST: gi|169112394|gb|FE510136.1|FE510136
EST:     GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAG                         GCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGTAA
genomic: GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccga ... ctccaaacagGCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGCAA
EST: gi|169080421|gb|FE488437.1|FE488437
EST:     GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAG                         GCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGTAA
genomic: GATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccga ... ctccaaacagGCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGCAA

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: 34 (upstream exon), 35 (downstream exon)
Score: 31

GTGGCGACAACGAAGTGCAAAGGACGATGCTCGAGATTGTCAATCAGCTGGATGGTTTTGATGCTCGTGGGAACATTAAAGTTTTGATGGCCACGAACAGgtactgccga ... ctccaaacagGCCTGACACTCTGGACCCGGCACTCCTCCGTCCCGGACGCCTCGATCGCAAGGTGGAGTTCGGACTCCCAGACCTCGACAGCAGAACTCAGATCTTCAAG




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