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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcattaccttattaattgcctatgttcagtcgacctttctgttacatccactgatttgtgtcttttatgtcaaattaagaagcaatcattttttctggtcaaatggacatgtactaacacaaaagtttccttttatcttgtag

Basic information

species Zea mays
transcript GRMZM2G141587_T02
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 14
lower sequence: LOC_Os02g11840.2 (Oryza sativa), 5'ss of exon 5
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcattaccttattaattgcctatgttcagtcgacctttctgttacatccactgatttgtgtcttttatgtcaaattaagaagcaatcattttttctggtcaaatggacatgtactaacacaaaagtttccttttatcttgtag
||||| || ||||| || |||||||||||||| |||||||||||||| || ||||||||||||||||| || ||||| |||| | ||   |  || ||   |   || ||||| |         ||| ||||| |||   | ||  || | |             | |||| ||   |||  |                                             
AATCTCTATTGGGCCGATAGTGGTGATTTAGTGACAATTGCAAGTGACACCTCATTCTACATTTTGAAGTACAATgtaagtttt-tctgcattttgttggctctgta-gttcaatga-------tgtaacatctacttgat-gtaactataacac----------aacaattataccttccag---------------------------------------------

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 14
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 14
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcattacctt-attaattgcctatgttcagtcgacctttctgttacatccactgatttgtgtcttttatgt-----caaattaagaagcaatcattttttctgg---tcaaatggacatgtactaacacaaaagtttccttttatcttgtag
|| || ||||||||||||||||||||| ||||||||||||| |||||||| |||||||||||| |||| || ||||||||   | || | | ||| ||   || | |||  |   | |     | ||    |    |       |  |    |        ||| ||  |  | |   || |||| | |   |  | |||   ||  ||   |  | | |  | |    | ||| ||
AACCTCTACTGGGCTGACAGTGGTGATCTAGTAACAATTGCTAGTGATACATCATTCTACATTCTGAAGTACAATgtgaggattttcgtgaacttcatcttttccttatagttgttggcttgctttgaagaacatcccaccccctccccccaacacacacacaatttctgctgaatgtatattttgtagatctttactggtagtgcccttgaaacatattgacttccattattgcag

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 14
lower sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 3
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcattaccttattaattgcctatgttcagtcgacctttctgttacatccactgatttgtgtcttttatgtcaaattaagaagcaatcattttttctggtcaaatggacatgtactaacacaaaagtttccttttatcttgtag
|| || ||||||||||| ||||||||| |||| || ||||| |||||||| |||||||| ||  |||| || ||||||||             || | ||||| |      |   |  ||| |||  |   |    | |  ||  | | | ||| ||  |||  |   || ||     | |   ||  |  || |  |||    ||                      
AACCTCTACTGGGCTGATAGTGGTGATCTAGTGACGATTGCTAGTGATACATCATTCTATATCCTGAAGTACAATgtgagga-----------ttctaaattgtcc----cccccccccctctcttatgtttttggttaaatgaatatctgatggcac-ttactagtgaagcac----tgtaaacattttaacttccactgttgcag---------------------

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 14
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 14
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcattacctt-attaattgcctatgttcagtcgacctttctgttacatccactgatttgtgtcttttatgtcaaattaagaagcaatc-attttttctggtcaaatggacatgtactaacacaaaagtttccttttatcttgtag
|| || ||||||||||||||||||||| ||||||||||||| || ||||| |||||||||||| |||| || ||||||||  || |||| | ||| ||   || | |||      | |     | |     ||    ||     |    ||| || | |||  | |    |   || ||| |||||  | ||  | |     ||||       ||||     | ||| ||
AACCTCTACTGGGCTGACAGTGGTGATCTAGTAACAATTGCTAGCGATACATCATTCTACATTCTGAAGTACAATgtgaggactctcatgaacttcatcttttccttatagatgttggcttgctttcaagaatattttgccccttactatttctgccgaatgtatatttgacagatctttactggt--agtgccctt---taaacattttgacttccac---tattgcag

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 14
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 14
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcattaccttattaattgcctatgttca-gtcgacctttctgttacatccactgatttgtgtcttttatgtcaaattaagaagcaatcattttttctggtcaaatggacatgtactaacacaaaagtttccttttatc-ttgtag
|| || ||||||||||| || ||||||||||| || ||||| |||||||| |||||||| ||  | || || ||||||||   | | | ||| | |    ||   | |   |  || ||| |||     | |  ||  | |||    | | | | |    ||||      |  || |  |       | | |  | | || |  | | |  ||  |||  ||  ||| ||
AACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAATgtgaggattctaaatacttgacccttttattttacacttgttgactttttatgaaaaagcatcgttttcccccctatgtttttggttaaa---tgaatatctgatggcacttactagtgaagcac-agtaaacattttaacttccattgttgcag

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

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 14
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 14
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcattaccttattaattgcctatgttcagtcgacctttctgttacatccactgatttgtgtcttttatgtcaaattaagaagcaatcattttttctggtcaaatggacatgtactaacacaaaagtttccttttatcttgtag
|||||||| |||||||| ||||||||||||||| | ||||| |||||||||||||||||||| ||||| || ||||||||          | ||  | ||   |  ||||||||      |||   ||    |||||  || |||  || |   |||||     |  |     ||  |     | | |                                        
AATCTTTATTGGGCTGAAAGTGGTGATTTAGTAGCCATTGCTAGTGATACGTCATTCTACATCTTGAAGTACAATgtgaga---------atctgttcaacctcaaatgttcagctattattttcatt---cccact--ttcgtggattgt---tcaaaagcttactctggtgttcctcgctattacag---------------------------------------

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 14
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 14
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgag--ttctgtcattaccttattaattgcctatgttcagtcgacctttctgttacatccactgatttgtgtcttttatgtcaaattaagaagcaatcattttttctggtcaaatggacatgtactaacacaaaagtttccttttatcttgtag
||||| || |||||||||||||||||||||||| | ||||| ||||| || ||||||||||| |||||||  || |||||  | |||||        |  ||   |   | | | ||  |  | | | |   || ||  ||||            ||| || |   ||       || ||  |   ||                                          
AATCTATATTGGGCTGACAGTGGTGATTTAGTAGCCATTGCTAGTGACACATCATTCTACATCTTGAAATTCAACgtgaggatcctgtc-------caacaaacactcttatgctgtgaatttctatatgcgattcatggatt------------gtccaagtgctaacatggtgttcttgttatacag-----------------------------------------

upper sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 14
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 14
AATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctgtcattaccttattaattgcctatgttcagtcgacctttctgttacatc--cactgatttgtgtcttttatgtcaaattaagaagcaatcattttttctggtcaaatggacatgtactaacacaaaagtttccttttatcttgtag
|||||||| |||||||| ||||||||||||||  |||||||||||||| | ||||| ||||| || || || ||||| || | | ||    |||| ||  ||  ||      |  | || ||| ||  | |||  ||  |||||||     | |  || | |       |||||||||     | | || |  || |    |||||   || | |   ||||| | | ||
AATCTTTATTGGGCTGATAGTGGTGATTTAGTGGCAATTGCAAGTGATTCATCATTTTACATCTTAAAGTACAATgtaagctttctc----cctttttggttctct-----tatcccacttttatgagaaatcatcatagatttgt---cataaaatctattcgttttacaatcatttga---gattaagt--acctcacttaacaaccaaatatg--tttatttggcag

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|211344820|gb|FK991758.1|FK991758
EST:     ATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAAT                         AGGGATGTAGTTTCATCTCATTTGGATAGAGGGGGTTCAGCTGGTGAGGAA
genomic: ATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctg ... tatcttgtagAGGGATGTAGTTTCATCTCATTTGGATAGAGGGGGTTCAGCTGGTGAGGAA
EST: gi|211344819|gb|FK991757.1|FK991757
EST:     ATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAAT                         AGGGATGTAGTTTCATCTCATTTGGATAGAGGGGGTTCAGCTGGTGAGGAA
genomic: ATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAATgtgagttctg ... tatcttgtagAGGGATGTAGTTTCATCTCATTTGGATAGAGGGGGTTCAGCTGGTGAGGAA