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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTACCTGGTGGAATCTCCATTCCTAATGTTTCCAAGTCTATCAAATGCGATAAAGGGGAGCGTATGCGGTTTAGGTCCGATATTCTTCCTTTCCAACAGgtaacttttcgttgaaaagtattggtttgtgttgttgtaggttttgagtggataagatcgccatctgttgaagcctttatctagtttccttgtacattgttctagagagtaaatttccttcatagcattttggatgccttagttattaacattttgttaacatttttcttatggtttgctag

Basic information

species Arabidopsis thaliana
transcript AT4G24290.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G24290.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os01g72860.1 (Oryza sativa), 5'ss of exon 1
TTTACCTGGTGGAATCTCCATTCCTAATGTTTCCAAGTCTATCAAATGCGATAAAGGGGAGCGTATGCGGTTTAGGTCCGATATTCTTCCTTTCCAACAGgtaacttttcgttg----aaaagtattggtttgtgttgttgta-ggttttgagtggataagatcgccatctgttgaagcctttatctagtttccttgtacattgttctagagagtaaatttccttcatagcattttggatgccttagttattaacattttgttaacatttttcttatggtttgctag
  | ||||||    |  |  || ||  ||| || ||||| ||||| ||||||||||||||||||||||||||  | || ||  |  |  | || || ||||||  |||||  ||      ||||  | || | || |||  ||   |  |  ||  ||   || |  ||  ||    |      |||   |  ||||  | |                                                                                     
GCTCCCTGGTAATCTGACGGTTACTGGTGTGTCTAAGTCAATCAAGTGCGATAAAGGGGAGCGTATGCGGTTCCGCTCTGACGTCTTATCATTTCAGCAGgtatgttttctatgcccattaagttctagtgtatgctgtattacaatgctatgtaaatgt-attgttattagtcacggtgaac-tcttactatcttgatctt-------------------------------------------------------------------------------------

upper sequence: AT4G24290.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA12G28780.1 (Glycine max), 5'ss of exon 2
TTTACCTGGTGGAATCTCCATTCCTAATGTTTCCAAGTCTATCAAATGCGATAAAGGGGAGCGTATGCGGTTTAGGTCCGATATTCTTCCTTTCCAACAGgtaacttttcgt------tgaaaagtattggtttgtgttgttgtaggttttgagtggataagatcgccatctgttgaagcctttatctagtttccttgtacattgttctagagagtaaatttccttcatagcattttggatgccttagttattaacattttgttaacatttttcttatggtttgctag
  ||||||||||| | || || || ||||||||||| || || ||||| ||||||||||| || || ||||| ||||||||| ||||  |||| ||||||||||  |||| |          | |   ||  || ||   |  |   |||||  || || | |       ||||| |     ||    | |     || | ||||                                                                                   
ACTACCTGGTGGAGTTTCAATACCAAATGTTTCCAAATCAATAAAATGTGATAAAGGGGAACGCATACGGTTCAGGTCCGATGTTCTGTCTTTTCAACAGgtaaactttcctgattttcttcaggagctgaattctggaatcatgtattttgcttgaatgaaaattttggctgttaa-----ttggaaattaattatgaagattg-----------------------------------------------------------------------------------

upper sequence: AT4G24290.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA16G00440.1 (Glycine max), 5'ss of exon 1
TTTACCTGGTGGAATCTCCATTCCTAATGTTTCCAAGTCTATCAAATGCGATAAAGGGGAGCGTATGCGGTTTAGGTCCGATATTCTTCCTTTCCAACAGgtaacttttcgt------tgaaaagtattggtttgtgttgttgtaggttttgagtggataagatcgccatctgttgaagcctttatctagtttccttgtacattgttctagagagtaaatttccttcatagcattttggatgccttagttattaacattttgttaacatttttcttatggtttgctag
  ||||||||||| | || || || ||||||||||| || || ||||| ||||||||||| || |  ||||| ||||| ||| ||||  |||| ||||||||||  |||| |          | |   ||  || ||   |  |   ||| |  || || | |       |||||    | |  |  ||  ||   || |||||||                                                                                  
ACTACCTGGTGGAGTTTCAATACCAAATGTTTCCAAATCAATAAAATGTGATAAAGGGGAACGCACACGGTTCAGGTCTGATGTTCTGTCTTTTCAACAGgtaagctttcctgtttttcttcaggagctgaattctggaatcatgtattt-gcttgaatgaaaattttggctgtta---cttagaaataaatta--tgaacattgt----------------------------------------------------------------------------------

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|47829235|gb|CK118919.1|CK118919
EST:     ATAAAGGGGAGCGTATGCGGTTTAGGTCCGATATTCTTCCTTTCCAACAG                         ATGGCAGAGCAGTTCAACCAGGAACTATCTTTGGCTGGTAAAATCCCGTCA
genomic: ATAAAGGGGAGCGTATGCGGTTTAGGTCCGATATTCTTCCTTTCCAACAGgtaacttttc ... ggtttgctagATGGCAGAGCAGTTCAACCAGGAACTATCTTTGGCTGGGAAAATCCCGTCA
EST: gi|116428850|gb|EG471442.1|EG471442
EST:     ATAAAGGGGAGCGTATGCGGTTTAGGTCCGATATTCTTCCTTTCCAACAG                         ATGGCAGAGCAGTTCAACCAGGAACTATCTTTGGCTGGGAAAATCCCGTCA
genomic: ATAAAGGGGAGCGTATGCGGTTTAGGTCCGATATTCTTCCTTTCCAACAGgtaacttttc ... ggtttgctagATGGCAGAGCAGTTCAACCAGGAACTATCTTTGGCTGGGAAAATCCCGTCA