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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTTAATAGgtgagtctgacttgtctcttatcagtctgaatgtactactaatttagtctcatgagtaatctcctattgtactaccgaatagaaacttgtcccatgtatcaatttctgttttgatgtaatgcag

Basic information

species Arabidopsis thaliana
transcript AT3G59110.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G59110.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os10g35450.1 (Oryza sativa), 5'ss of exon 3
AGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTTAATAGgtgagtctgacttgtctcttatcagtctgaatgtactactaatttagtctcatgagtaatctcctattgtactaccgaatagaaacttgtcccatgtatcaatttctgttttgatgtaatgcag
|||| || ||||| ||| |||||||||||||||||||||| || ||  |||| |||||||||||  | ||||||||||||||  | |||||  |  | |||| |  || | || ||  | | |  |    ||| |   |||  ||    |  |   || |  |  ||| |      | ||||  |  |       | ||   | |  || |             
AGGCAGAAAAGGAGTTCAGGGTTGAAGTTGAGGCTATTGGCCACGTCAGGCATAAGAATCTTGTCCGCCTTCTAGGATATTGTGTTGAGGGAATCCACAGgtaaagct-atttatcaatcacctttgctgatggatggctagctt----ttgtttctactggcacattatttacttgcatagggatgta------ggattgctcttggtct-------------

upper sequence: AT3G59110.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os01g41730.1 (Oryza sativa), 5'ss of exon 2
AGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTTAATAGgtgagtctgacttgtctcttatcagtctgaatgtactactaatttagtctcatgagtaatctcctattgtactaccgaatagaaacttgtcccatgtatcaatttctgttttgatgtaatgcag
|||| || || || |||  ||||||||||||| |||||||||||||  ||||||||||||| ||  | |||||||| || ||||| |||||     | |||| | ||||     | | || | |||  |  | || || |  || |||        | |||    || |  || | | | |      | |      |  || |  ||| |   || |       
AGGCAGAAAAAGAGTTCAAGGTTGAAGTTGAGTCTATTGGTCATGTTAGGCACAAGAATCTGGTGCGACTTCTAGGTTACTGCATTGAGGGAAGCTACAGgtaaatctg-----tgttttgttagttagccttta-tatt--ttcagt--------tgatcgttcatggatctgcagga-aattgtatatttttcttg-cagtgactgctacaatatg------

upper sequence: AT3G59110.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G031400_T01 (Zea mays), 5'ss of exon 3
AGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTTAATAGgtgagtctgacttgtctcttatcagtctgaatgtactactaatttagtctcatgagtaatctcctattgtactaccgaatagaaacttgtccca-tgtatcaatttctgttttgatgtaatgcag
|||| |||||||||||| | ||||||||||| || || |||||||| |||||||||||||| ||  | ||||| ||||||||| | || ||  |  ||||||  |  |   | |||  ||    ||       | || ||   ||  |  |||  ||    | ||||   |   |  || ||   || |  |||   ||     |||                  
AGGCAGAGAAGGAATTCAGAGTTGAAGTTGAAGCCATCGGTCATGTTCGGCACAAGAATCTGGTCCGCCTTCTGGGATATTGCGTGGAAGGGATACATAGgttggcat--ttcgtccttt--tggttccttctttctgctggatttattacatctgt----ttctatgaaagatcataaaagctgctaggaccagcatacatgcttca-----------------

upper sequence: AT3G59110.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G026301_T01 (Zea mays), 5'ss of exon 3
AGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTTAATAGgtgagtctgacttgtctcttatcagtctgaatgtactactaatttagtctcatgagtaatctcctat-tgtac-taccgaatagaaacttgtcccatgtatcaatttctgttttgatgtaatgcag
| || || ||||| ||| |||||||||||||||| ||||| |||||  |||| |||||||||||  | ||||| ||||||||| | |||||  |  | ||||||  || | || |     ||    ||||  |    |   ||||  |||| |   | | || | || ||||  ||||  || |    |||   |||  || |                       
AAGCAGAAAAGGAGTTCAGGGTTGAAGTTGAGGCAATTGGACATGTCAGGCATAAGAATCTTGTCCGCCTTCTTGGATATTGCGTGGAGGGAATACACAGgtgaagctaatttctgatcaattgcactgacagatggatagattt--tctcttagttcagcttccatatgtatgtacctgattgttg-ttgatacatacataa-----------------------

upper sequence: AT3G59110.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 5'ss of exon 4
AGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTTAATAGgtgagtctgacttgtctcttatcagtctg--aatgta--------ctactaatttagtctcatgagtaatctcctattgtactaccgaatagaa--acttgtcccatgta---tcaatttctgttttgatg-taatgcag---------------------------------------------------------
|||| || || || ||| ||||||||||||||||||| || ||||| ||||| || ||||||||  | ||| | || ||||||||||| || ||| | |||| ||  |   |    | ||||   | ||  ||| ||        ||| | |||| |  |  ||  |  | |  |  | || |  |     |||  |||| | |  || |     || | || ||   ||  |  ||||                                                          
AGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTTCACAGgtaagatttgttcactttttattgatgtggtaatttatttcattcctattcatttggcatgttggatgttattattatttattgtcatgatgaagtactttttcgttgaaaaacaaagtacttttccaattcttttgcaatcttgtcgatctgatttgcctgggatgtggttatgtacttattattctttaatatag

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|164164156|gb|ES025977.1|ES025977
EST:     CACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTTAATAG                         GATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAAC
genomic: CACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTTAATAGgtgagtctga ... tgtaatgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAAC