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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATTACTACTACGTAAAGACCAAGATGTCCGGATTCTTCCAGACAAGCTTCTACTTTGGATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTTGCGgtgagctcactctcttcactctcttcaaactagcgagtggtgttattgatttgactaaaccttcgttatgtgaaaattttgcag

Basic information

species Arabidopsis thaliana
transcript AT1G10950.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G10950.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os11g07910.1 (Oryza sativa), 5'ss of exon 11
TATTACTACTACGTAAAGACCAAGATGTCCGGATTCTTCCAGACAAGCTTCTACTTTGGATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTTGCGgtgagc--tca---ctctcttcactct-cttcaaactagcgagtggtgttattgatttgactaaaccttcgttatgtgaaaattttgcag
|| || ||  |||| ||||| |||||||| || |||||||||||||||||||||||||| |||||| |||||||||| || || || ||||| |||||||||||||  | |    | | |||| | |  |||||| |  |   ||||     || ||||||   || |   |  | |             
TACTATTATCACGTGAAGACAAAGATGTCTGGCTTCTTCCAGACAAGCTTCTACTTTGGCTACACCTTGATGTTCTGCCTCGGACTAGGAATTCTTTGCGgtgagcatttaaacttgtattcattgtatttcaaattgccacttggt----ctgttttgacaccacgtctttggtttag-----------

upper sequence: AT1G10950.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os02g34690.1 (Oryza sativa), 5'ss of exon 11
TATTACTACTACGTAAAGACCAAGATGTCCGGATTCTTCCAGACAAGCTTCTACTTTGGATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTTGCGgtgagctcactctcttcactctcttcaaactagcgagtggtgttattgatttgactaaaccttcgttatgtgaaaattttgcag
||||| ||| | || |||||||||||||| |||||||| |||||||| |||||||| || |||||  | |||||||| || ||  | ||||  || |||||| |||||     |  |  |  | |      | | |    | | || | ||  ||| |  |    |    |     |   |   
TATTATTACCATGTGAAGACCAAGATGTCAGGATTCTTTCAGACAAGTTTCTACTTCGGCTACACTCTTATGTTCTGCCTAGGTTTAGGAACACTCTGCGgtaagctcttctacaccggtagcatgcttaaacccaagaatttgatggtttcaactgataccggttcgaattttggtccag---

upper sequence: AT1G10950.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G087212_T01 (Zea mays), 5'ss of exon 11
TATTACTACTACGTAAAGACCAAGATGTCCGGATTCTTCCAGACAAGCTTCTACTTTGGATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTTGCGgtgagctcactctcttcactctcttcaaact--agcgagtggtgttattgatttgactaaaccttcgttatgtgaaaattttgcag
|| || ||  | || ||||| |||||||| ||||| ||||||||||||||||||||||| |||||| ||||||||||||||||  | ||||| ||||||||||||    |   |||   |   |  ||  |    |     ||| |  || ||||||   |||||   |||||| | || | |   
TACTATTATCATGTGAAGACAAAGATGTCAGGATTTTTCCAGACAAGCTTCTACTTTGGTTACACCTTGATGTTCTGTCTTGGATTGGGAATACTTTGCGgtgagtcttcaaacttgttttcatctaatttcagtcttacagtggtcgtgttttgac---accttt-ctatgtgtatatgtag---

upper sequence: AT1G10950.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G026231_T01 (Zea mays), 5'ss of exon 11
TATTACTACTACGTAAAGACCAAGATGTCCGGATTCTTCCAGACAAGCTTCTACTTTGGATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTTGCGgtgagctcactctcttcactctcttcaaactagcgagtggtgttattgatttgactaaaccttcgttatgtgaaaattttgcag
|| |||||| | || ||||| |||||||| || |||||||||||||| ||||||||||| |||||  |||||||||| ||||| || || || ||||| ||| |||| |   | | |   |||| |||  ||    |||   || | | |||   |  ||||  | | | ||    |  | |||
TACTACTACCATGTGAAGACAAAGATGTCAGGCTTCTTCCAGACAAGTTTCTACTTTGGTTACACACTGATGTTCTGCCTTGGTCTAGGCATACTTTGTGgtaagctaatattgtgc---ctctgcaatatat---gtgacttt-tcggttt---ttgacctgtgatttttgttggtgattcag

upper sequence: AT1G10950.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G420310_T01 (Zea mays), 5'ss of exon 11
TATTACTACTACGTAAAGACCAAGATGTCCGGATTCTTCCAGACAAGCTTCTACTTTGGATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTTGCGgtgagctcactctcttcactctcttcaaac--tagcgagtggtgttattgatttga----ctaaaccttcgt--tatgtgaaaattttgcag
|| |||||| | || ||||| |||||||| || |||||||||||||| ||||| || || |||||  |||||||||| |||||||| || || ||||| ||| || || |  |     |     |||  |  | || |  | ||| | || |||      || | |  ||||  | |||       || |||
TACTACTACCATGTGAAGACAAAGATGTCAGGCTTCTTCCAGACAAGTTTCTATTTCGGCTACACGCTGATGTTCTGCCTTGGCCTAGGCATACTTTGTGgtaagatcgcctttcaaccaaagatcatgccttggcaatagatgtgactgtttttggtctctgacctgtcgtcttttgtttggtgattccag

upper sequence: AT1G10950.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA12G29120.1 (Glycine max), 5'ss of exon 11
TATTACTACTACGTAAAGACCAAGATGTCCGGATTCTTCCAGACAAGCTTCTACTTTGGATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTTGCGgtgagc--tcactctcttcactctcttcaaactagcgagtggtgttattgatttgactaa-accttcgttatgtgaaaattttgcag----------------------------------------------------------
|| |||||||| || ||||| |||||||| || |||||||| || |||||||| |||||||||||  ||||||| |||||||| || ||||| || || ||| ||   ||| | |  |     |||    |  |  | |     ||| | |  ||   || |||||  ||   |    || ||   |                                                          
TACTACTACTATGTGAAGACGAAGATGTCAGGCTTCTTCCAAACCAGCTTCTATTTTGGATACACTTTGATGTTTTGTCTTGGACTGGGAATTCTGTGTGgtaagtcttcagtttaattgtaatctctgcagaaatgggataccttagttaagtgctgaatacctttttttaatatttatattaatgctagagtgttcttaatcttatcacttgaattggattaaatttttctccaaatgtgcag

upper sequence: AT1G10950.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA08G20100.1 (Glycine max), 5'ss of exon 11
TATTACTACTACGTAAAGACCAAGATGTCCGGATTCTTCCAGACAAGCTTCTACTTTGGATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTTGCGgtgagc--tcactctcttca----ctctcttcaaactagcgagtggtgttattgatttga-----ctaaaccttcgttatgtga-aaattttgcag-----------------------------------------------------------------------------
|| |||||||| || ||||| |||||||| || |||||||| || |||||||| |||||||||||  ||||||| |||||||| || ||||| || || ||| ||   ||| | |  |      |||| ||   | |      |     |   || |||      ||   |||| || |  ||  ||||    |                                                                               
TACTACTACTATGTGAAGACGAAGATGTCAGGCTTCTTCCAAACCAGCTTCTATTTTGGATACACTTTGATGTTTTGTCTTGGGCTGGGAATTCTGTGTGgtaagtcttcagtttaattgtaatctctgtttggattgtgtgttcactctgcagaattgggataccttgtccttagtcaattgccaaatacctcttttttatattaatattaatgctagagtagagtgttcttaatcttatcatatggattaaatttttctccaaatgtgcag

upper sequence: AT1G10950.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA05G30210.1 (Glycine max), 5'ss of exon 11
TATTACTACTACGTAAAGACCAAGATGTCCGGATTCTTCCAGACAAGCTTCTACTTTGGATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTTGCGgtgag-ctcactctcttcactct---cttcaaactagcgagtggtgttattgatttgactaaaccttcgttatgtgaaaattttgcag-----------------------------------------
|| |||| ||| || ||||| |||||||| || ||||||||||| ||||| || |||||||||||  ||||||| | |||||| || ||||| || || ||| || ||   ||  ||   | |    ||  | |  ||   ||   ||    || | |        |  ||| |    | || |                                             
TACTACTTCTATGTGAAGACGAAGATGTCAGGCTTCTTCCAGACCAGCTTTTATTTTGGATACACTTTGATGTTTTCTCTTGGACTAGGAATTCTATGTGgtaagtcttcttcaatttgatttagattttcaccctgcttatgtgattggatatcttatcgtgtgctgattaagccccacttctttctattgtcctgaattgggttataatttatctttaaatgtgcag

upper sequence: AT1G10950.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA08G13370.1 (Glycine max), 5'ss of exon 11
TATTACTACTACGTAAAGACCAAGATGTCCGGATTCTTCCAGACAAGCTTCTACTTTGGATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTTGCGgtgagctcactc--------------tcttcactctcttcaaactagcgagtggtgttat--tgatttgactaaacctt-cgttatgtgaaaattttgcag-------------------------------------------------------
|| |||| ||| || ||||| |||||||| || ||||||||||| ||||| || |||||||||||  ||||||| | |||||| || ||||| || || ||| ||    ||               | ||||| ||  | |    |  || |  | ||||  ||     | ||| ||   | |  |   |   |  ||||                                                        
TACTACTTCTATGTGAAGACGAAGATGTCAGGCTTCTTCCAGACCAGCTTTTATTTTGGATACACTTTGATGTTTTCTCTTGGACTAGGAATTCTATGTGgtaagtcgtcttcaatttgatttagattttcaccctgcttatgtgattgaata-tcttatcgtgtgccaattaagccccacttcttcctattgtcctgcataaagccttgtgtccttatctcctgaatcgggctataatgtttctttaatgtgcag

upper sequence: AT1G10950.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv12s0035g00280.t01 (Vitis vinifera), 5'ss of exon 11
TATTACTACTACGTAAAGACCAAGATGTCCGGATTCTTCCAGACAAGCTTCTACTTTGGATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTTGCGgtgagctc-------actctcttcactctcttca-aactagcgagtggtgttattgatttgactaaaccttcgttatgtgaaa----attttgcag-----
||||||||||| || ||||| |||||||| || |||||||| || ||||||||||| ||||||||| ||||||| || |||||  | |||||||| || |||||| |          |||  |  || | || | || | | |     | || || |  | | | |    |  |||| |||||    |||||  |      
TATTACTACTATGTGAAGACTAAGATGTCAGGCTTCTTCCAAACCAGCTTCTACTTCGGATACACCCTGATGTTTTGCCTTGGTTTAGGAATCCTCTGTGgtgagtttctacggtgttctgattcctttttttataatttgtgtaccttatttttcacat-attcattgatttttatatgaaatttcattttctaaaaaag

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|164062708|gb|ES203791.1|ES203791
EST:     TGATGTTCTGTCTTGGCCTTGGAATCCTTTGCG                         GAGCTGTTGGCTACCTGGGATCAAATCTGTTTGTAAGGAGGATCTACAGAA
genomic: TGATGTTCTGTCTTGGCCTTGGAATCCTTTGCGgtgagctcac ... aattttgcagGAGCTGTTGGCTACCTGGGATCAAATCTGTTTGTAAGGAGGATCTACAGAA
EST: gi|125065337|gb|EL132603.1|EL132603
EST:     TACTTTGGATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTTTGCG                         GAGCTGTTGGCTACCTGGG
genomic: TACTTTGGATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTT-GCGgtgagctcac ... aattttgcagGAGCTGTTGGCTACCTGGG
EST: gi|124989235|gb|EL061566.1|EL061566
EST:     CTACTTT-GATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTTGCG                         GAGCTGTTGGCTACCTGGGATCAAATCTGTTTGTAAGGAGGATCTACAGAA
genomic: CTACTTTGGATACACCATGATGTTCTGTCTTGGCCTTGGAATCCTTTGCGgtgagctcac ... aattttgcagGAGCTGTTGGCTACCTGGGATCAAATCTGTTTGTAAGGAGGATCTACAGAA
EST: gi|125250457|gb|EL264542.1|EL264542
EST:     TGTTCTGTCTTGGCCTTGGAATCCTTTGCG                         GAGCTGTTGGCTACCTGGGATCAAATCTGTTTGTAAGGAGGATCTACAGAA
genomic: TGTTCTGTCTTGGCCTTGGAATCCTTTGCGgtgagctcac ... aattttgcagGAGCTGTTGGCTACCTGGGATCAAATCTGTTTGTAAGGAGGATCTACAGAA