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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAGATTAGTCTGCGGAAAGCGGTACTGCTTGCGAGGAGTAGATTGTCTAAGCTCGTCGTTAGTTATTTCTCTCGGTAGAATCAAACAAAGTTTCGTATTgtgagtacattatttttttattgtgttatggagttacagtctgctacaatagattttgatattgacattgttctcgtaactttgcag

Basic information

species Arabidopsis thaliana
transcript AT2G02710.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G02710.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os01g09120.2 (Oryza sativa), 5'ss of exon 2
GTAGATTAGTCTGCGGAAAGCGGTACTGCTTGCGAGGAGTAGATTGTCTAAGCTCGTCGTTAGTTATTTCTCTCGGTAGAATCAAACAAAGTTTCGTATTgtgagt-----acattatttttttattgtgttatggagttacagtctgc--tacaatagattttgatattgacattgttctcgtaactttgcag---------------------------------
||  | | |||||||| ||| | |     |     ||  |       || || || || |||  | ||||||| ||||||||||||||||| || |||||||||||      ||| || | ||| |  |||| | |  ||   || |         |  |  |  ||||   ||||    ||     ||   |                                  
GTCTAGTGGTCTGCGGGAAGAGATGTGATTCTGTTGGCATCCCAGCACTCAGTTCTTCATTAAATCTTTCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttatttgcataatctgtttgtattgttgttgttttgacgtatatctcgtgttcaaaataaatatatgcatttcattccctctttattaattgagagcagttttattttgaaatgattcacag

upper sequence: AT2G02710.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G176506_T07 (Zea mays), 5'ss of exon 2
-------------------------GTAGATTAGTCTGCGGAAAGCGGTACTGCTTGCGAGGAGTAGATTGTCTAAGCTCGTCGTTAGTTATTTCTCTCGGTAGAATCAAACAAAGTTTCGTATTgtgagtacattatttttttattgtgttatggagtta-cagtctgctacaatagattttgatattga---cattgttctcgtaactt-tgcag--------------------------------------
                         ||  | | ||| || | ||| | |    || |   ||  |       || || |||||||||    | |||||||||||||||||||| || || |||||||||||   ||   | |||  |   ||||   |||  |    ||   |     |||||  | ||||   ||||||      || |  |||                                        
CTGAACAGCTACAGCAAGCTAACTGGTCTAGTGGTCAGCAGGAAGAGATGTGACTCGATTGGCATCCCAGCACTCAGTTCGTCGTTAAAACTCTCTCTCGgtagaatcaaacagagctttgtattgtgagttatttgcatattttgtccattattttgttgtctacttgtctcgtcttatttttgtgttgaaaacattgtatgtccaattcatgcgtgcttcattattaaactgatcattttgaactgatcacag

upper sequence: AT2G02710.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G176506_T04 (Zea mays), 5'ss of exon 2
GTAGATTAGTCTGCGGAAAGCGGTACTGCTTGCGAGGAGTAGATTGTCTAAGCTCGTCGTTAGTTATTTCTCTCGGTAGAATCAAACAAAGTTTCGTATTgtgagtacattatttttttattgtgttatggagtta-cagtctgctacaatagattttgatattg---acattgttctcgtaactt-tgcag--------------------------------------
||  | | ||| || | ||| | |    || |   ||  |       || || |||||||||    | |||||||||||||||||||| || || |||||||||||   ||   | |||  |   ||||   |||  |    ||   |     |||||  | |||   |||||||      || |  |||                                        
GTCTAGTGGTCAGCAGGAAGAGATGTGACTCGATTGGCATCCCAGCACTCAGTTCGTCGTTAAAACTCTCTCTCGGTAGAATCAAACAGAGCTTTGTATTgtgagttatttgcatattttgtccattattttgttgtctacttgtctcgtcttatttttgtgttgaaaacattgtatgtccaattcatgcgtgcttcattattaaactgatcattttgaactgatcacag

upper sequence: AT2G02710.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA01G04920.1 (Glycine max), 5'ss of exon 2
GTAGATTAGTCTGCGGAAAGCGGTACTGCTTGCGAGGAGTAGATTGTCTAAGCTCGTCGTTAGTTATTTCTCTCGGTAGAATCAAACAAAGTTTCGTATTgtgagt----------acattatttttttattgtgtt---atggagttacagtctgctacaatagat--tttgatattgacattgttctc-gtaactttgcag
| ||||| || ||   |||| | | | || | |  |  || | |  | ||||| | || ||  |||||||||| ||||||||||||||||| || |||||||||||             |  |||| |||||   ||   |     |||   | | |    |    |  |||| |  |   ||  || |  ||  | ||||||
GCAGATTGGTGTGTCAAAAGAGATGCAGCATTCCTGATGTGGGTCTTTTAAGCACATCCTTGATTATTTCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagttgttggaaatgtctagttttgttattacttttccacaagcttatgctttccgcagacccttaatttgttgcttgtatgattttgagtttccttgcag

upper sequence: AT2G02710.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA16G10260.1 (Glycine max), 5'ss of exon 4
GTAGATTAGTCTGCGGAAAGCGGTACTGCTTGCGAGGAGTAGATTGTCTAAGCTCGTCGTTAGTTATTTCTCTCGGTAGAATCAAACAAAGTTTCGTATTgtgagtacatt---atttttttattgtgttatggagttacagtctgctacaatagattttgata-----ttga--cattgttctcgtaactttgcag----------
  ||||| || ||  ||||| ||| | || | |  |  || | |  | ||||| | || ||  |||||||||| ||||||||||||||||| || |||||||||||  |||   | | | |  || ||||||    | || |   |||  | |   ||||  ||     || |    |||||    | | ||||             
-GAGATTGGTGTGTAGAAAGAGGTCCAGCATTCCTGACGTGGGTCTTTTAAGCACATCCTTGATTATTTCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagt-tattggaaatgtctagttttgttattacttgaccgcaagcttta-tgcttttttgtagacccttaatttgttgtttgtatgattttgagtttccatgtag

upper sequence: AT2G02710.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G02600.5 (Glycine max), 5'ss of exon 2
GTAGATTAGTCTGCGGAAAGCGGTACTGCTTGCGAGGAGTAGATTGTCTAAGCTCGTCGTTAGTTATTTCTCTCGGTAGAATCAAACAAAGTTTCGTATTgtgagtacatt---atttttttattgtgttatggagttacagtctgctacaatagattttga----tattgac--attgttctcgtaactttgcag----------
| ||||| || ||  ||||| ||| | || | |  |  || | |  | ||||| | || ||  |||||||||| ||||||||||||||||| || |||||||||||  |||   | | | |  || ||||||    |||| |   |||  |     |||||       || |    |||||    | | ||||             
GGAGATTGGTGTGTAGAAAGAGGTCCAGCATTCCTGACGTGGGTCTTTTAAGCACATCCTTGATTATTTCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagt-tattggaaatgtctagttttgttattactttaccgcaagctttatgcttttttgcagacccttaatttgttgtttgtatgattttgagtttccatgcag

upper sequence: AT2G02710.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv01s0026g01590.t01 (Vitis vinifera), 5'ss of exon 3
GTAGATTAGTCTGCGGAAAGCGGTACTGCTTGCGAGGAGTAGATTGTCTAAGCTCGTCGTTAGTTATTTCTCTCGGTAGAATCAAACAAAGTTTCGTATTgtgagtacat-tatttttttattgtgttatggagttacagtctgctacaatagattttgatattgacattgttctcgtaactttgcag-----------------------------
| | ||| ||||||| |||| | | |  |||    ||| | |     ||  |  | || ||| |||| ||||| ||||||||||||||||| || |||||||||||   |  | ||  | | | | || |      | ||    | | |     |||  | || |  | |||  |||    | ||||                              
GCAAATTGGTCTGCGAAAAGAGATGCACCTTATCTGGAATTGGCCTCCTTGGTGCTTCCTTAATTATATCTCTTGGTAGAATCAAACAAAGCTTTGTATTgtgagtttttacaattcctaaatttctttta---ccatagatgtcaatatagtgtttgaagatggttaatgtcttcgcc-ttatgcatcccacaacatatatgtgttgctcttgcag

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|124851411|gb|EH935848.1|EH935848
EST:     AGCTCGTCGTTAGTTATTTCTCTCGGTAGAATCAAACAAAGTTTCGTATT                         AACCAATCCATGCTTACCAG
genomic: AGCTCGTCGTTAGTTATTTCTCTCGGTAGAATCAAACAAAGTTTCGTATTgtgagtacat ... aactttgcagAACCAATCCATGCTTACCAG
EST: gi|116453954|gb|EG496546.1|EG496546
EST:     AGCTCGTCGTTAGTTATTTCTCTCGGTAGAATCAAACAAAGTTTCGTATT                         AACCAATCCATGCTTACCAGACATGCCTATCATTTATGCGAGTGATGCCTT
genomic: AGCTCGTCGTTAGTTATTTCTCTCGGTAGAATCAAACAAAGTTTCGTATTgtgagtacat ... aactttgcagAACCAATCCATGCTTACCAGACATGCCTATCATTTATGCGAGTGATGCCTT