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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACGATAAATCTAGCTGCGATCTGTACTCCAGCAGATTACAATACGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTGgtatgtattttatgcttttgcagtttgtttggtttagtggagcaattttgtaagtttgaggaatatttttatgtgatacggattttagttgtgacattgagtggtcattggttttggtatgtag

Basic information

species Arabidopsis thaliana
transcript AT1G08200.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G167872_T01 (Zea mays), 5'ss of exon 2
ACGATAAATCTAGCTGCGATCTGTACTCCAGCAGATTACAATACGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTGgtatgtattttatgcttttgcagtttgtttggtttagtggagcaattttgtaagtttgaggaatatttttatgtgatacggattttagttgtgacattgagtggtcattggttttggtatgtag
|| || || || || || ||||| || || || || ||||| ||||| || || ||||| ||||||||||| ||||| ||||| |||||||||||  |   || ||  ||||    || |  |    || |  |||    |   | |  ||| ||   |||   |      |   ||||                                      
ACCATCAACCTGGCGGCTATCTGCACGCCGGCGGACTACAACACGCGCCCCCTCGACACCATCTACAGCAACTTCATCGATGCACTCCCAGTGgtcggcccttgatcttttttt--ttcgcatttcctactacagc----tgacatggctgatgaccgtttccttccttcccttcttttcag-----------------------------------

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G063949_T01 (Zea mays), 5'ss of exon 2
ACGATAAATCTAGCTGCGATCTGTACTCCAGCAGATTACAATACGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTGgtatgtattttatgct-tttgcagtttgtttggtttagtggagcaattttgtaagtttgaggaatatttttatgtgatacggattttagttgtgacattgagtggtcattggttttggtatgtag
|| ||||| || || |||||||| || || || || ||||| || || || |||||||| ||||||||||| ||||| || || |||||||||||| | |||   | || |  |||   |         |   ||   |   ||| | | | |   ||   |   | |  |    |                                          
ACCATAAACCTGGCCGCGATCTGCACGCCGGCCGACTACAACACTCGCCCACTTGACACCATCTACAGCAACTTCATCGACGCACTCCCAGTGgtacg-attacctactatcagcatcatcacacaaacacaagacagaacatgtcaatgtcactcatcactcactctcctgtccag-----------------------------------------

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA11G19550.1 (Glycine max), 5'ss of exon 2
ACGATAAATCTAGCTGCGATCTGTACTCCAGCAGATTACAATACGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTGgtatgtattttat-gcttttgcagtttgtttggtttagtggagcaattttgtaagtttgaggaatatttttatgtgatacggattttagttgtgacattgagtggtcattggttttggtatgtag
|| || ||||| |||||||| || ||||| || |||||||| || || ||||| ||||| || |||||||||||||| || || ||||| ||||||  ||  | |   | | | ||  |||      | |   |   ||| |||   |||||||      || |||| ||    | |||  | | ||                               
ACTATTAATCTGGCTGCGATTTGCACTCCCGCGGATTACAACACTCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgtaactaactaaccacctgttcaaattgaaaatgtgaaacgctgaatcttgagggtttgag------ttctatgcgacgtcgttttgtgctttgtag----------------------------

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA12G30490.2 (Glycine max), 5'ss of exon 2
ACGATAAATCTAGCTGCGATCTGTACTCCAGCAGATTACAATACGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTGgtatgtatt-ttatgcttttgcagtttgtttggtttagtggagcaattttgtaagtttgaggaatatttttatgtgatacggattttagttgtgacattgagtggtcattggttttggtatgtag
|| || ||||| ||||| || || ||||| || |||||||| ||||| ||||||||||| || |||||||| ||||| || || || || |||||  || ||  | |   ||| |  | | |    |||      |   || |||  |||||   | |    ||  | |||  | ||||  |||  |                               
ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACGCGCCCTCTTGACACAATTTACAGCAACTTCATCGACGCGCTTCCTGTGgtgcgtcttacttttactttactttctctcccttttttctttgtt-ttctgtgtgtttggaaattcaaattgag-gattggaatttgggttcag-------------------------------

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA12G08930.1 (Glycine max), 5'ss of exon 2
ACGATAAATCTAGCTGCGATCTGTACTCCAGCAGATTACAATACGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTGgtatgtattttatgcttttgcagtttgtttggtttagtggagcaattttgtaagtttgaggaatatttttatgtgatacggattttagttgtgacattgagtggtcattggttttggtatgtag
|| || ||||| ||||| || || ||||| || |||||||| || || ||||| ||||| || |||||||||||||| || || ||||| ||||||   | || |    ||  |    |    | | || | |  ||| | || |   ||||       | ||   ||||  |  ||  | | |  || | |  | ||  ||  || | |       
ACTATTAATCTGGCTGCCATTTGCACTCCCGCGGATTACAACACCCGCCCTCTCGACACCATTTACAGCAATTTCATCGACGCGCTCCCCGTGgta---acttaactacttcactaactacccgttctaattg--caaatgtgaattgttgaa------tcttgaatgatttgagttcgattcg--acgtcgtttcgttcttttttgtag-------

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv06s0061g01120.t01 (Vitis vinifera), 5'ss of exon 2
ACGATAAATCTAGCTGCGATCTGTACTCCAGCAGATTACAATACGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTGgtatg-tattttatgctt-ttgcagtttgtttggtttagtggagcaattttgtaagtttgaggaatatttttatgtgatacggattttagttgtgacattgagtggtcattggttttggtatgtag
|| || ||||| || |||||||||||||| || || |||||||| |||||||| || || || |||||||||||||||||||| || ||||||||||| | ||  |||||| ||  | || ||||   |    |||  ||| ||||   | | ||     ||||| |||    ||||  |  ||||   | |   |||    ||| | | | | | |||
ACTATCAATCTGGCGGCGATCTGTACTCCCGCGGACTACAATACTCGTCCTCTCGATACGATTTACAGCAATTTCATTGATGCCCTTCCAGTGgtatgctgttggatgcttgtttgaattcgttttcgtccaagga-taatattgt---tgttag-----tttttttgtttctcggaaatctgttgaagc-tgatgtgcgttttgatgtggctctttag

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 2
ACGATAAATCTAGCTGCGATCTGTACTCCAGCAGATTACAATACGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTGgtatg-tattttatgcttttgcagtttgtttggtttagtggagcaattttgtaagtttgaggaatatttttatgtgatacg--gattttagttgtgacattgagtggtcattggttttgg-tatgtag
||  | ||||| ||||||||||||||||| ||||| |||||||| |||||||| || || || |||||||||||||||||||| || ||||||||||| | ||  ||| || |     || |||    |        ||| |||| | ||       | ||| |  |  ||  |  ||   |  |     | |||| | |   || | | ||| | | |||
ACTGTCAATCTGGCTGCGATCTGTACTCCCGCAGACTACAATACTCGTCCTCTCGATACGATTTACAGCAATTTCATTGATGCACTTCCAGTGgtatgctgttggatgtttgtttgaattatttttcgttcaaagataatgttgttatttgtctttttgtttctcggaaatctgttgaagctgatgtatgcgttgatttgcgttttgatgtggctttttag

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|116456216|gb|EG498808.1|EG498808
EST:     CGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTG                         GTTAAATACTGCTCAGAGAACAACAAGCGTCTGATTCACTTTTCCACTTGT
genomic: CGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTGgtatgtattt ... tggtatgtagGTTAAATACTGCTCAGAGAACAACAAGCGTCTGATTCACTTTTCCACTTGT
EST: gi|116471821|gb|EG514413.1|EG514413
EST:     CGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTG                         GTTAAATACTGCTCAGAGAACAACAAGCGTCTGATTCACTTTTCCACTTGT
genomic: CGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTGgtatgtattt ... tggtatgtagGTTAAATACTGCTCAGAGAACAACAAGCGTCTGATTCACTTTTCCACTTGT
EST: gi|116456222|gb|EG498814.1|EG498814
EST:     CGCGTCCCCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTG                         GTTAAATACTGCTCAGAGAACAACAAGCGTCTGATTCACTTTTCCACTTGT
genomic: CGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTGgtatgtattt ... tggtatgtagGTTAAATACTGCTCAGAGAACAACAAGCGTCTGATTCACTTTTCCACTTGT
EST: gi|124818139|gb|EH903005.1|EH903005
EST:     CATTGATGCTCTCCCAGTG                         GTTAAATACTGCTCAGAGAACAACAAGCGTCTGATTCACTTTTCCACTTGT
genomic: CATTGATGCTCTCCCAGTGgtatgtattt ... tggtatgtagGTTAAATACTGCTCAGAGAACAACAAGCGTCTGATTCACTTTTCCACTTGT
EST: gi|116456221|gb|EG498813.1|EG498813
EST:     CGCGTCCCCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTG                         GTTAAATACTGCTCAGAGAACAACAAGCGTCTGATTCACTTTTCCACTTGT
genomic: CGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTGgtatgtattt ... tggtatgtagGTTAAATACTGCTCAGAGAACAACAAGCGTCTGATTCACTTTTCCACTTGT
EST: gi|116456217|gb|EG498809.1|EG498809
EST:     CGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTG                         GTTAAATACTGCTCAGAGAACAACAAGCGTCTGATTCACTTTTCCACTTGT
genomic: CGCGTCCTCTTGACACTATCTACAGCAATTTCATTGATGCTCTCCCAGTGgtatgtattt ... tggtatgtagGTTAAATACTGCTCAGAGAACAACAAGCGTCTGATTCACTTTTCCACTTGT