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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggatcttttttaaaccttggtagtgagccagaactcttgtacatttccttagtttattttcctagtactgttgctgttcgagacatggttttaagctgttttcttactgttctgctgtag

Basic information

species Arabidopsis thaliana
transcript AT1G79990.1
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 5'ss of exon 14
AATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggatcttttttaaaccttggtagtgagccaga-actcttgtacatttccttagtttattttcctagtactgttgctgttcgagacatggttttaagctgttttctta--ctgttctgctgtag
|| ||||||||||| || || ||||| ||||||||||| || |||||||||||||||||||| || |||| ||| || ||    | | |||   ||   |  | |    |  | |  | | |   || | | | | || |      |  |||  | ||  |  |||||  | ||| | | ||  ||   |||  | ||  ||
AACCTTTATTGGGCTGATAGCGGTGACCTAGTTGCAATAGCAAGTGATACATCATTCTACATACTGAAGTACAACgtaagttattgtatta--tctaaatgttcattatgttatttcttttctcctcttgaatgtgttattgcgtgaaagttctttttttac-catggcatgaagttatgtttgtaatttgtgttcctacag

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: LOC_Os02g11840.2 (Oryza sativa), 5'ss of exon 5
AATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggatcttttttaaaccttggtagtgagccagaactcttgtacatttccttagtttattttcctagtactgttgctgttcgagacatggttttaagctgttttcttactgttctgctgtag
||||| |||||||| || ||||||||| ||||  ||||||| ||||| || |||||||||||  | |||| |||||| ||  | | |        ||||   ||      ||   |   |||| | |||  | ||  |   ||  ||      | | |    ||                                   
AATCTCTATTGGGCCGATAGTGGTGATTTAGTGACAATTGCAAGTGACACCTCATTCTACATTTTGAAGTACAATgtaagtttttctgcattttgttggctctgtagttcaatgatgtaacatctacttgatgtaacta--taacacaacaattataccttccag----------------------------------

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GRMZM2G095348_T03 (Zea mays), 5'ss of exon 14
AATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggatcttttttaaaccttggtagtgagccagaactcttgtacatttccttagtttattttcctagtactgt-tgctgttcgagacatggtt-ttaagctgttttcttactgttctgctgtag
||  |||| ||||| || |||||||| ||||||||||| || ||||||||||||||||||||||| |||| |||||| ||      | ||  | | |   | |||     | ||  | |   |||||||   |||    ||| ||  ||  ||  |||  | |||   |   || | | | | |||  |            
AACGTTTACTGGGCTGATAGTGGTGACCTAGTTGCAATAGCAAGTGATACATCATTCTACATCCTCAAGTACAATgtaaga-----tattgtatcgtca-aatgattattatcttgtttctttttcctt---ttacccaccttgtgatgcatggcgttataaacaaaatgactatgatatgtgctttttag----------

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GRMZM2G000645_T01 (Zea mays), 5'ss of exon 14
AATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggatcttttttaaaccttggtagtgagccagaactcttgtacatttccttagtttattttcctagtactgttgctgttcgagacatggttttaagctgttttcttactgttctgctgtag
||| |||| ||||| || |||||||| ||||||||||| || ||||||||||||||||||||||| |||| |||||| ||    | | |       || |  | | | ||     || | |  ||| ||     |  | | | ||  || ||  | |    |||       |   |  |   || | |           
AATGTTTACTGGGCTGATAGTGGTGACCTAGTTGCAATAGCAAGTGATACATCATTCTACATCCTCAAGTACAATgtaagatattgtatcctcaaatgattattatctagtttctttttcc--ttcttttacccacctcctt-gtgatgatggggattataacacaaaacgagatttgtgctttgcag-----------

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GRMZM2G124886_T01 (Zea mays), 5'ss of exon 14
AATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggat-----cttttttaaaccttggtagtgagccagaactcttgtacatttccttagtttattttcctagtactgttgctgttcgagaca--tggttttaagctgttttcttactgttctgctgtag---------------------
|||||||| ||||| |||||||||||| ||||  ||||||| |||||||| |||||||||||  | || |  ||||||||        || | ||||       |  | ||       |   ||    | |  || ||| | | | |  || |||     |  ||   |  |  ||||  | |    |   | |||  |  |  |                      
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcactgtcttaattgcctatgttcagttgacctttcagttacatccactattttttgtcctttttaatgtcaaattaagaagaaattatttttctggtcaaattgaaatgtattaatacaaaagtttccttttatcttgtag

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 14
AATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggatcttttttaaaccttggtagtgagccagaactcttgtacatttcc-ttagtttattttcctagtactgttgctgt----tcgagacatggttttaagctgttttcttactgttctgctgtag--------------------------
|||||||| ||||| |||||||||||| ||||  ||||||| |||||||| |||||||||||  | || |  ||||||||     |  |||  ||||  || |   | |       |  || ||||  |||  |    |   | ||    ||  |||    |  |||     |  |    | |  ||  |  |   ||   ||                           
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcatta--ccttattaattgcctatgttcagtcgacctttctgttacatccactgatttgtgtcttttatgtcaaattaagaagcaatcattttttctggtcaaatggacatgtactaacacaaaagtttccttttatcttgtag

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 14
AATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggatcttttttaaac---------cttggtagtgagccagaactcttgtacatttccttagtttattttcctagtac------tgttgctgttcgagacatggttttaagctgttttcttactgttctgctgtag-----------------------
|| || || ||||| |||||||||||||||||  ||||||| |||||||||||||||||||| || |||| |||||||||||| ||  | ||           | |  ||||            ||| | |    |  |     |   || |  ||        || ||| |  |   ||  |||  || | ||| ||    || |   || |                        
AACCTCTACTGGGCTGACAGTGGTGATCTAGTAACAATTGCTAGTGATACATCATTCTACATTCTGAAGTACAATgtgaggattttcgtgaacttcatcttttccttatagttgttggcttgctttgaagaacatcccaccccctccccccaacacacacacaatttctgctgaatgtatattttgtagatctttactggtagtgcccttgaaacatattgacttccattattgcag

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 14
AATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggatcttttttaaaccttggtagtgagccagaactcttgtacatttccttagtttatttt-cctagtactgttgctgttcgagacatggttttaagctgttttcttactgttctgctgtag-----------------------
|| || || ||||| |||||||||||||||||  ||||||| || ||||||||||||||||| || |||| ||||||||||| || |  | ||| |      |     | |  | |||      |    ||  |||||| ||   |||| || |||    |   ||  ||   || | ||| ||    || |   |  |                        
AACCTCTACTGGGCTGACAGTGGTGATCTAGTAACAATTGCTAGCGATACATCATTCTACATTCTGAAGTACAATgtgagga-ctctcatgaacttcatcttttccttatagatgttggcttgctttcaagaatattttgccccttactatttctgccgaatgtatatttgacagatctttactggtagtgccctttaaacattttgacttccactattgcag

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 3
AATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggatcttttttaaaccttggtagtgagccagaactcttgtacatttccttagtttattttcctagtactgttgctgttcgagacatggttttaagctgttttcttactgttctgctgtag
|| || || ||||| || ||||||||||||||  | ||||| ||||||||||||||||| ||||| |||| ||||||||||||    | ||||  |||        ||    ||||| |   |||  |||  | | | ||  |   |  || ||  | ||  ||  ||   || |  |||   | |    ||| || ||
AACCTCTACTGGGCTGATAGTGGTGATCTAGTGACGATTGCTAGTGATACATCATTCTATATCCTGAAGTACAATgtgaggat----tctaaa--ttgtcccccccccccctctcttatgtttttggttaaatgaatatctgatggcacttactagt-gaagcactgt---aaacattttaacttcca--ctgttgcag

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 14
AATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggatcttttttaaaccttggtagtgagccagaactcttgtacatttccttagt-------ttattttcctagtactgttgctgttcgagacatggttttaagctgttttcttactgttctgctgtag------------------------
|| || || ||||| || || |||||| ||||  | ||||| ||||||||||||||||| |||||||||| ||||||||||||   | | ||  ||||    |        || |||||  | ||  |  |        |  ||||||      ||||  || |  |   |   | | | |    || || | ||     | |||                         
AACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAATgtgaggat---tctaaatacttgacccttttattttacacttgttgactttttatgaaaaagcatcgttttcccccctatgtttttggttaaatgaatatctgatggcacttact-agtgaagcacagtaaacattttaacttccattgttgcag

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 14
AATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggatcttttttaaaccttggtagtgagccagaactcttgtacatttccttagtttattttcctagtactgttgctgttcgag-acatggttttaagctgttttcttactgttctgctgtag-----------
|||||||||||||| || ||||||||| |||| |||||||| |||||| ||||||| |||||| | |||| |||||| ||  |  |   |      |  |  |   |||    | |   | ||   | ||| ||  |     | |    | | | | | |  |  ||   |||||    |  ||||     |   | |             
AATCTTTATTGGGCTGATAGTGGTGATTTAGTGGCAATTGCAAGTGATTCATCATTTTACATCTTAAAGTACAATgtaagctttctccctttttggttctcttatcccacttttatgagaaatcatcatagatttgtcataaaatctattcgttttacaatcatttgagattaagtacctcacttaacaaccaaatatgtttatttggcag

upper sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 14
AATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggatctt----ttttaaaccttggtagtgagccagaactcttgtacatttccttagtttattttcctagtactgttgctgttcgagacatggttttaagctg---ttttcttactgttctgctgtag
|| || |||||||| || ||||| ||| | || || |||||||||||||||||||| |||||||| |||| ||||||  ||||| |    || | || | |  |  | | |  |     || | | || |  ||    |||  || | | |   || | |     ||    ||  ||  ||   |||| ||| | |  |  || ||
AACCTCTATTGGGCTGATAGTGGGGATTTGGTGGCCATTGCCAGTGATACATCATTTTACATCCTGAAGTACAATgtatggatcctcaaattattaatcctc-tttttaacttgtgtaattctcctttcctctatagaattggccaaatgc--atgatttggagcactgcattccaaattgaactttttttaatttaattttgcag

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|164228921|gb|EL973730.1|EL973730
EST:     GTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAAT                         CGTGACATTGTTTCCTCTTATTTTGATGGCGGTAAACAAATTGATGAGGAA
genomic: GTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAATgtgaggatct ... tctgctgtagCGTGACATTGTTTCCTCTTATTTTGATGGCGGTAAACAAATTGATGAGGAA
EST: gi|164229173|gb|ES178481.1|ES178481
EST:     CCTTAAGTTCAAT                         CGTGACATTGTTTCCTCTTATTTTGATGGCGGTAAACAAATTGATGAGGAA
genomic: CCTTAAGTTCAATgtgaggatct ... tctgctgtagCGTGACATTGTTTCCTCTTATTTTGATGGCGGTAAACAAATTGATGAGGAA