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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAAGAGTTTGTGATGACGAAAGACGAGTTCTCAGGAGCTGATATAAAGGCTATATGCACTGAGGCTGGTCTACTAGCTCTCAGGGAGCGTCGTATGAAGgtagagactcttaaccatttagttcaagcacatacaaacacacacacacacaccacttgggcaattactagccactgacgctaatgtgtttaaattggatttgttcag

Basic information

species Arabidopsis thaliana
transcript AT4G29040.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G29040.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G056569_T01 (Zea mays), 5'ss of exon 4
CGAAGAGTTTGTGATGACGAAAGACGAGTTCTCAGGAGCTGATATAAAGGCTATATGCACTGAGGCTGGTCTACTAGCTCTCAGGGAGCGTCGTATGAAGgtagagactcttaaccatttagttcaagcacatacaaacacacacacacacaccacttgggcaattactagccactgacgctaatgtgtttaaattggatttgttcag
 ||||||||||| ||||| ||||| |||||||| || |||||||| ||||| || ||||| ||||||||  | || ||  | || || ||| | ||||| ||   ||  || |||   |      |     || |  | | ||           | | |    ||| | |   |||    ||  | | ||   || | ||  |     
GGAAGAGTTTGTTATGACCAAAGATGAGTTCTCGGGCGCTGATATTAAGGCCATCTGCACGGAGGCTGGATTGCTCGCCTTAAGAGAACGTAGAATGAAAgt---gagcctgaacttgtatccctacatcaattcgtataaacttgtctgggtgaatagaagtatt-cgaataactcgaccttttat-ttgctatcgaataggga---

upper sequence: AT4G29040.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G095593_T01 (Zea mays), 5'ss of exon 4
CGAAGAGTTTGTGATGACGAAAGACGAGTTCTCAGGAGCTGATATAAAGGCTATATGCACTGAGGCTGGTCTACTAGCTCTCAGGGAGCGTCGTATGAAGgtaga---gactcttaaccatttagttcaagcacatacaaa--cacacacacacacaccacttgggcaattactagccactgacgctaatgtgtttaaattggatttgttcag
 ||||||||||| ||||| ||||||||||| || || |||||||| ||||| || ||||| ||||||||  | || ||  | || || ||  | |||||||||||   ||   || | | |||  |  ||  | || || |             | |  |||     ||| |||   |  |   |||| ||  |   |||             
GGAAGAGTTTGTTATGACCAAAGACGAGTTTTCGGGTGCTGATATTAAGGCAATCTGCACAGAGGCTGGATTGCTTGCCTTAAGAGAACGCAGAATGAAGgtagacgtgaacttttatcttttgctaaaaatagattcagaattttctgggtgaatataactgttcaaataactcaactattttgctattggataggaat-------------

upper sequence: AT4G29040.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA13G19280.1 (Glycine max), 5'ss of exon 5
CGAAGAGTTTGTGATGACGAAAGACGAGTTCTCAGGAGCTGATATAAAGGCTATATGCACTGAGGCTGGTCTACTAGCTCTCAGGGAGCGTCGTATGAAGgtagagactcttaaccatttagttcaagcacatacaaacacacacacacacaccacttgggcaattactagccactgacgctaatgtgtttaaattggatttgttcag
 ||||| ||||| ||||| |||||||| ||||| ||||||||||||||||| ||||| ||||| |||||| |||| |||||  | || ||||| |||||||||   | |||   |  | | | ||||     || | |   | | |   | |  |||       |   | |    ||   ||  | | |  ||  |    ||| | | 
GGAAGAATTTGTTATGACTAAAGACGAATTCTCCGGAGCTGATATAAAGGCAATATGTACTGAAGCTGGTTTACTTGCTCTACGAGAACGTCGAATGAAGgtaagaaatct---ctttgtggctcaattgtttatata---atataataatagtactccattgttgtatggaagttgctact--tttttacaagctcttattgataaa

upper sequence: AT4G29040.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 5
CGAAGAGTTTGTGATGACGAAAGACGAGTTCTCAGGAGCTGATATAAAGGCTATATGCACTGAGGCTGGTCTACTAGCTCTCAGGGAGCGTCGTATGAAGgtagagactcttaaccatttagttcaagcac--atacaaacacacacacacacaccacttgggcaattactagccactgacgctaatgtgtttaaattggatttgttcag
 ||||| ||||| ||||| ||||| || ||||| ||||||||||||||||| ||||| ||||| || ||| |||| |||||  | || || || |||||||||   | |||      ||||  | |   |   |||  |   ||       ||   | |||   | ||  |  | ||| |   | ||      ||| |  |         
GGAAGAATTTGTTATGACTAAAGATGAATTCTCTGGAGCTGATATAAAGGCAATATGTACTGAAGCCGGTTTACTTGCTCTACGAGAACGCCGAATGAAGgtaagaaatctctcttgtttatatgatataataatagtactccattgttgtacggaagttgc-tagttttttacaactcatattgataaagccaaaatata---------

upper sequence: AT4G29040.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA03G32800.1 (Glycine max), 5'ss of exon 5
CGAAGAGTTTGTGATGACGAAAGACGAGTTCTCAGGAGCTGATATAAAGGCTATATGCACTGAGGCTGGTCTACTAGCTCTCAGGGAGCGTCGTATGAAGgtagagactcttaaccatttagttcaagcacatacaaacacacacacacacaccacttgggcaattactagccactgacgctaatgtgtttaaattggatttgttcag
 ||||| ||||| ||||| || || |||||||| |||||||||||||| || ||||| ||||| |||||  |||| ||| |  | || || || ||||||||    | | |   | || | |||    ||  || |  |  | ||| |       | || | || ||  |   |  ||   || |   | |||   ||| ||    ||
AGAAGAATTTGTTATGACCAAGGATGAGTTCTCTGGAGCTGATATAAAAGCAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGAATGAAGgttagaagtatcttctatat-gtttgtacagttatagcc-taaaca-atgttgatcctgtggaaata--aattatggaacttagttgctgtaa---ggaattacaaag

upper sequence: AT4G29040.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA19G35510.1 (Glycine max), 5'ss of exon 5
CGAAGAGTTTGTGATGACGAAAGACGAGTTCTCAGGAGCTGATATAAAGGCTATATGCACTGAGGCTGGTCTACTAGCTCTCAGGGAGCGTCGTATGAAGgtagagactcttaaccatttagttcaagcacatacaaacacacacacacacaccacttgggcaattactagc-cactgacgctaatgtgtttaaattggatttgttcag
 ||||| ||||| ||||| || || |||||||| |||||||||||||| || ||||| ||||| |||||  |||| ||| |  | || || || ||||||||    | | |   | || || ||  ||    ||    |  |   |     | |   |||  |  || ||    ||||  |||  |  |  | |     | ||      
AGAAGAATTTGTTATGACTAAGGATGAGTTCTCTGGAGCTGATATAAAAGCAATATGTACTGAAGCTGGCTTACTTGCTTTACGAGAACGCCGGATGAAGgttagtagtatcttctatatatttgtagagt-tatggcctaaataatgtg-atcctgtggaaatatattattgtactgttgctgttaggaatta--caaagtta-----

upper sequence: AT4G29040.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv07s0005g05160.t01 (Vitis vinifera), 5'ss of exon 5
CGAAGAGTTTGTGATGACGAAAGACGAGTTCTCAGGAGCTGATATAAAGGCTATATGCACTGAGGCTGGTCTACTAGCTCTCAGGGAGCGTCGTATGAAGgtagagactcttaaccatttagttcaagcacatacaaacacacacacacacaccacttgggcaattactagccac-tgacgctaatgtgtttaaattggatttgttcag
 ||||| ||||| ||||| || || ||||| || ||||||||||||||||| ||||||||||| |||||| | || ||| | || || || |||||||||||   |   |||   | | || |||   | | || |  ||   |   | |   || |||   ||| | |    |  ||     | ||  |  |  |  ||||| ||   
GGAAGAATTTGTTATGACTAAGGATGAGTTTTCTGGAGCTGATATAAAGGCAATATGCACTGAAGCTGGTTTGCTTGCTTTAAGAGAACGGCGTATGAAGgtgagg---cttgctcttctatttc---ctcttatag-caaggaaggaaatttca-ttgtctaatgattgtgtatgtgtgagcactgcatgcatgtatgatttttttc-

upper sequence: AT4G29040.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ32659 (Selaginella moellendorffii), 5'ss of exon 5
CGAAGAGTTTGTGATGACGAAAGACGAGTTCTCAGGAGCTGATATAAAGGCTATATGCACTGAGGCTGGTCTACTAGCTCTCAGGGAGCGTCGTATGAAGgtagagactcttaaccatttagttcaagcacatacaaacacacacacacacaccacttgggcaattactagccactgacgctaatgtgtttaaattggatttgttcag
 |||||||||||||||||||| || || ||||| |||||||| || ||||| || |||||||| ||||| || || || || || || || || ||||||||||    ||| ||   |||     |    | |  ||  |    |     | |||                                                     
TGAAGAGTTTGTGATGACGAAGGATGAATTCTCTGGAGCTGACATCAAGGCAATGTGCACTGAAGCTGGGCTTCTGGCACTAAGAGAACGGCGGATGAAGgtagt--ttctcaatgcttttcacaactttcttgtaacgattttcttcttctccag----------------------------------------------------

upper sequence: AT4G29040.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ20767 (Selaginella moellendorffii), 5'ss of exon 5
CGAAGAGTTTGTGATGACGAAAGACGAGTTCTCAGGAGCTGATATAAAGGCTATATGCACTGAGGCTGGTCTACTAGCTCTCAGGGAGCGTCGTATGAAGgtagagactcttaaccatttagttcaagcacatacaaacacacacacacacaccacttgggcaattactagccactgacgctaatgtgtttaaattggatttgttcag
 |||||||||||||||||||| ||||| || || |||||||| || ||||| || |||||||| ||||| || || || || || || || || ||||||||||    |||  |   |||     |    | |  ||  |    |     | |||                                                     
TGAAGAGTTTGTGATGACGAAGGACGAATTTTCTGGAGCTGACATCAAGGCAATGTGCACTGAAGCTGGGCTTCTGGCACTAAGAGAACGGCGGATGAAGgtagt--ttctcgatgcttttcacaactttcttgtaacgattttcttcttctccag----------------------------------------------------

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|86082474|gb|DR378233.1|DR378233
EST:     CTATATGCACTGAGGCTGGTCTACTAGCTCTCAGGGAGCGTCGTATGAAG                         GTGACACATCCTGATTTCAAGAAAGCAAAGGAGAAGGTTATGTTCAAGAAG
genomic: CTATATGCACTGAGGCTGGTCTACTAGCTCTCAGGGAGCGTCGTATGAAGgtagagactc ... atttgttcagGTGACACATCCTGATTTCAAGAAAGCAAAGGAGAAGGTTATGTTCAAGAAG