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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGTACTCGAATGCTTACATGCTTGTATATATCCGAGAAAGTGACAAAGATAAAATAATCTGCAACGTTGATGAGAAAGACATAGCAGAACATTTAAGGgtaaaatattttcgggcattttcttagtagtttatttgcgtcttggttttacctgatcgttcattacattttgacag

Basic information

species Arabidopsis thaliana
transcript AT5G06600.3
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G06600.3 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 5'ss of exon 9
AAAGTACTCGAATGCTTACATGCTTGTATATATCCGAGAAAGTGACAAAGATAAAATAATCTGCAACGTTGATGAGAAAGACATAGCAGAACATTTAAGGgtaaaatattttcgggcattttcttagtagtttatttgcgtcttggttttacc-tgatcgttcattacattttgacag-----------------------
|||||| || ||||| ||||||||||| || ||||| || ||||| || || |||||||| || || ||||||||||| ||||| || || ||||||||||||   | || |   ||||| ||        ||       | |      ||||  ||| |   | |||  |   |                          
AAAGTATTCAAATGCCTACATGCTTGTCTACATCCGTGAGAGTGATAAGGACAAAATAATGTGTAATGTTGATGAGAAGGACATTGCTGAGCATTTAAGGgtatg-tgttgttttgcattctcactcctccttgggccaatttcctcgataccacgattggaaaataccatcgcatgtgtcaacacacgtgggcccaggcc

upper sequence: AT5G06600.3 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 5'ss of exon 13
AAAGTACTCGAATGCTTACATGCTTGTATATATCCGAGAAAGTGACAAAGATAAAATAATCTGCAACGTTGATGAGAAAGACATAGCAGAACATTTAAGGgtaaa--------atattttcgggcatttt--cttagtagtttatttgcgtctt-ggttttacctgatcgttca-ttacattttgacag
|||||| |||||||| ||||||||||| ||||| || || || ||||| ||||||||||| || || |||||||| || ||||| || || |||||  ||||||         ||||| ||   | ||     | |||| |||||     | |  ||| ||    |    ||||  |    | |  |||
AAAGTATTCGAATGCCTACATGCTTGTCTATATTCGTGAGAGCGACAAGGATAAAATAATGTGTAATGTTGATGAAAAGGACATCGCTGAGCATTTGCGGgtaagtatcatgcatattctcctaccttcctattcagtattttatacatttttcaggtgttttgagggaattcaactgtgctcttgcag

upper sequence: AT5G06600.3 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os01g56490.1 (Oryza sativa), 5'ss of exon 13
AAAGTACTCGAATGCTTACATGCTTGTATATATCCGAGAAAGTGACAAAGATAAAATAATCTGCAACGTTGATGAGAAAGACATAGCAGAACATTTAAGGgtaaaatattttcgggcattttcttagtagtttatttgcgtcttggttttacctgatcgttcattacattttgacag
 ||| | || ||||||||||||||||| || || || |||||||||| ||| ||||| || |||||  | ||||| || |||||| |||||||  | | ||||| |  | |||   | |||  ||  | |  |||    |   | |||    |||||        |   |||  |||
TAAGCATTCAAATGCTTACATGCTTGTGTACATTCGTGAAAGTGACAGAGAAAAAATTATTTGCAATTTAGATGAAAACGACATACCAGAACACCTTAAGgtaatacttcttcc--cttttcttttcttgggtatcacagaacttgtt----ctgatgtcatgaaaacctttaccag

upper sequence: AT5G06600.3 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G303655_T01 (Zea mays), 5'ss of exon 3
AAAGTACTCGAATGCTTACATGCTTGTATATATCCGAGAAAGTGACAAAGATAAAATAATCTGCAACGTTGATGAGAAAGACATAGCAGAACATTTAAGGgtaa-------aata-ttttcgggcattttcttagtagtttat--------ttgcgtcttggttttacctgatcgttcattacatt-----ttgacag
|||||| |||||||| ||||||||||| ||||| || || ||||||||||| |||||||| || || || |||||||| ||||| || || |||||  ||||||         || ||   |   | ||||  | |  | | |        |||  | || |||  |  |  |  || |||  | |     || ||||
AAAGTATTCGAATGCCTACATGCTTGTCTATATACGTGAGAGTGACAAAGAGAAAATAATGTGTAATGTCGATGAGAAGGACATCGCTGAGCATTTGCGGgtaagtagttcggtagttcctgtatactttcccacttttctttgtatcatcttgtatttttgttgaagatagtgattgattgaactattcttttacag

upper sequence: AT5G06600.3 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G071441_T02 (Zea mays), 5'ss of exon 9
AAAGTACTCGAATGCTTACATGCTTGTATATATCCGAGAAAGTGACAAAGATAAAATAATCTGCAACGTTGATGAGAAAGACATAGCAGAACATTTAAGGgtaaaatattttcgggcattttcttagtagttta-----tttgcgtcttggttttacctgatcgttcattacattttgacag-------------------
 ||| | || ||||||||||||||||| || || |||||||||||||||||||| || |||||  |  | |||||  |||| ||  |||||||  | | |||| | | |||       |||    | |  || |      |  ||||  |    ||  | |   ||   || |||| ||||                    
CAAGCATTCAAATGCTTACATGCTTGTTTACATTCGAGAAAGTGACAAAGATAACATTATCTGTGATTTGGATGATGAAGATATTTCAGAACACCTTAAGgtatactttttattcaattttaaaaaattattaaatactctcccgtcccgtgaataagtcaaacttttctagattt-gacaagtttttaggaaaaatatca

upper sequence: AT5G06600.3 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G014805_T01 (Zea mays), 5'ss of exon 13
AAAGTACTCGAATGCTTACATGCTTGTATATATCCGAGAAAGTGACAAAGATAAAATAATCTGCAACGTTGATGAGAAAGACATAGCAGAACATTTAAGGgtaaaatattttcgggcatttt-----cttagtagtttat----ttgcgtcttggttttacctgatcgttcattacatt-----ttgacag
|||||| || ||||| ||||||||||| ||||| || || | |||||| ||||||||||| || || || |||||||| || || || || |||||  ||||||    || | |   | |||     |||     | |||    ||| || || |||  |  |  |  || |||  | |     || ||||
AAAGTATTCAAATGCCTACATGCTTGTCTATATACGTGAGAATGACAAGGATAAAATAATGTGTAATGTCGATGAGAAGGATATTGCTGAGCATTTGCGGgtaagtagttctggtatactttgtccccttttctatgtatcatcttgtgtttttgttggagatagtgattgattgaactgttcttttacag

upper sequence: AT5G06600.3 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv08s0032g00600.t01 (Vitis vinifera), 5'ss of exon 13
AAAGTACTCGAATGCTTACATGCTTGTATATATCCGAGAAAGTGACAAAGATAAAATAATCTGCAACGTTGATGAGAAAGACATAGCAGAACATTTAAGGgtaaaatattttcgggcattttcttagtagtttatttgcgtcttggt--tttacctgatcgttcat---tacattttgacag---------------------
 || ||||| ||||| ||||||||||| ||||| || ||||||||||| || ||||| || || || || |||||||| ||||| || |||||  | ||||||||| ||||  ||   | ||  || | |       | |  |||||  ||| | ||    | |||   |  ||   ||| |                     
GAAATACTCAAATGCATACATGCTTGTGTATATACGTGAAAGTGACAAGGAGAAAATCATTTGTAATGTGGATGAGAAGGACATTGCTGAACACCTTAGGgtaaaacattt--ggttttatttgtaattgaactacagagatttggtaatttccatgtgtctgcatgtgtggatccagactgacaatcaaaatctaatcccag

upper sequence: AT5G06600.3 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: EFJ19227 (Selaginella moellendorffii), 5'ss of exon 13
AAAGTACTCGAATGCTTACATGCTTGTATATATCCGAGAAAGTGACAAAGATAAAATAATCTGCAACGTTGATGAGAAAGACATAGCAGAACATTTAAGGgtaaaatattttcgggcattttcttagtagtttatttgcgtcttggttttacctgatcgttcattacattttgacag
 |||||||| ||||| |||||||||||||||||| |||| || || || || ||  | |||||||| || || | |||||| || || || || ||   |||||  ||||||  || ||||| || || |  ||   |    ||   ||| |||  | |                  
GAAGTACTCCAATGCATACATGCTTGTATATATCAGAGAGAGCGATAAGGACAAGGTTATCTGCAATGTAGACGTGAAAGATATTGCTGAGCACTTGCAGgtaa--tatttttcggtatttt-ttggtggagtaacagttcgttctcttttccttttag------------------

upper sequence: AT5G06600.3 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: EFJ13603 (Selaginella moellendorffii), 5'ss of exon 12
AAAGTACTCGAATGCTTACATGCTTGTATATATCCGAGAAAGTGACAAAGATAAAATAATCTGCAACGTTGATGAGAAAGACATAGCAGAACATTTAAGGgtaaaatattttcgggcattttcttagtagtttatttgcgtcttggttttacctgatcgttcattacattttgacag
 |||||||| ||||| |||||||||||||||||| |||| || || || || ||  | |||||||| || || | |||||| || || || || ||   |||||  ||||||  ||  |||| || || |  ||   |    ||   ||| |||  | |                  
GAAGTACTCCAATGCATACATGCTTGTATATATCAGAGAGAGCGATAAGGACAAGGTTATCTGCAATGTAGACGTGAAAGATATTGCTGAGCACTTGCAGgtaa--tatttttcggtgtttt-ttggtggagtaacagttcgttctcttttccttttag------------------

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|125319634|gb|EL333719.1|EL333719
EST:     ATAAAATAATCTGCAACGTTGATGAGAAAGACATAGCAGAACATTTAAGG                         GTGAGGCTAAAGAAAGAGCA
genomic: ATAAAATAATCTGCAACGTTGATGAGAAAGACATAGCAGAACATTTAAGGgtaaaatatt ... attttgacagGTGAGGCTAAAGAAAGAGCA