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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTCAGAAAGGCTCTTCTGTTAGGCTGCCTGTTGCACACATGGTCTGCAACCAAACTCCACCAGTAGGTGACAAGCCAAGCCTTATGACATTCCGTGAGgtaaatgaaaaaacatccattgcacttgcacatatctaagcgtaacatgaaatctcaaaaatcctttcttgttgactataacatcactctgatttacag

Basic information

species Arabidopsis thaliana
transcript AT5G65620.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G65620.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os02g58340.1 (Oryza sativa), 5'ss of exon 10
GGCTCAGAAAGGCTCTTCTGTTAGGCTGCCTGTTGCACACATGGTCTGCAACCAAACTCCACCAGTAGGTGACAAGCCAAGCCTTATGACATTCCGTGAGgtaaatgaaaaaacatccattgcacttgcacatatctaagcgtaacatgaaatct-caaaaatcctttcttgttgactataacatcactctgatttacag--
 ||||  || || ||  |||| ||||| |||||||| || ||||| || || || || |||||||| ||||| || || || |||||||| |||||||||||||   | || | ||  || ||| | | | ||   |     ||   |  ||| |   |  || || |    |  |       |  ||| |    || ||  
TGCTCGCAATGGTTCACCTGTCAGGCTTCCTGTTGCCCATATGGTGTGTAATCAGACCCCACCAGTTGGTGATAAACCCAGTCTTATGACCTTCCGTGAGgtaagcaataataaat--atggcaatggtaaattattccagatagtctccaatgtatgagtattctgttacatcaatatgtggaaaactgtacactaaagta

upper sequence: AT5G65620.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G133919_T01 (Zea mays), 5'ss of exon 10
GGCTCAGAAAGGCTCTTCTGTTAGGCTGCCTGTTGCACACATGGTCTGCAACCAAACTCCACCAGTAGGTGACAAGCCAAGCCTTATGACATTCCGTGAGgtaaatgaaaaaacatccattgcacttgcacatatctaagcgtaacatgaaatctcaaaaatcctttcttgttgactataacatcactctgatttacag------------------------------
 ||||  || || |   ||| ||||||||||||||| || || || ||||| || ||||||||||| || || ||||| || || ||||| ||||||||||||| |   || |||||  |  ||  || |  |   ||||  ||    || |   ||  |   || |     |   ||| |    ||| |||  |   |                              
AGCTCGCAATGGTTTGGCTGCTAGGCTGCCTGTTGCCCATATAGTGTGCAATCAGACTCCACCAGTTGGCGAGAAGCCCAGTCTCATGACCTTCCGTGAGgtaagt---aatacatctgtgaca--tgtatgtgaataaggatatatggagaaagcagtagctctctgcctctccttattatggtactatgaagttgtgtaaattctttctgctgtatgttgcctgtag

upper sequence: AT5G65620.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA01G02480.1 (Glycine max), 5'ss of exon 10
GGCTCAGAAAGGCTCTTCTGTTAGGCTGCCTGTTGCACACATGGTCTGCAACCAAACTCCACCAGTAGGTGACAAGCCAAGCCTTATGACATTCCGTGAGgtaaatgaaaaaacatccattgcacttgcacatatctaagcgtaacatgaaatct-caaaaatcctttcttgttgac-tataacatcactctgatttacag---------
  | |   | ||| | || |  ||  |||||||||| |||||||| ||||| |||||||| ||||||||  |||||||||| || |||||||||||||||||||         | || |||  || || |  ||| |     |   || |  | | | |  ||| ||   |||| |   | || |     ||    ||            
ATCGCGTGATGGCACCTCAGCAAGATTGCCTGTTGCTCACATGGTGTGCAATCAAACTCCTCCAGTAGGAAACAAGCCAAGTCTAATGACATTCCGTGAGgtaa---------cctcaattttacatg-atgtatttgtctattttataatttttgctatgatcattatctgttaagacaaaagagtttcctaggctatttaagctgaat

upper sequence: AT5G65620.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA09G33490.1 (Glycine max), 5'ss of exon 10
GGCTCAGAAAGGCTCTTCTGTTAGGCTGCCTGTTGCACACATGGTCTGCAACCAAACTCCACCAGTAGGTGACAAGCCAAGCCTTATGACATTCCGTGAGgtaaatgaaaaaacatccattgcacttgcacatatctaagcgtaacatgaaatctcaaaaatcctttcttgttgactataaca---tcactctgatttacag-------
  | |   | ||  | || |  ||  |||||||||| |||||||| ||||| |||||||| ||||||||  |||||||||| || |||||||||||||||||||    ||    |     |||| |||   || |       |||  |    |  | |  ||| ||   ||||   || || |   |  |   | | |  |        
ATCGCGCGATGGTACCTCAGCAAGATTGCCTGTTGCTCACATGGTGTGCAATCAAACTCCTCCAGTAGGAAACAAGCCAAGTCTAATGACATTCCGTGAGgtaacctcaattttacatgatgcatttgtctatttt-----ataattt----ttgctatgatcattatctgttagataaaaaagagttgccaggctatttaagctaaat

upper sequence: AT5G65620.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv06s0061g01070.t01 (Vitis vinifera), 5'ss of exon 10
GGCTCAGAAAGGCTCTTCTGTTAGGCTGCCTGTTGCACACATGGTCTGCAACCAAACTCCACCAGTAGGTGACAAGCCAAGCCTTATGACATTCCGTGAGgtaaatgaaaaaacatc-cattgcacttgcacatatctaagcg-taacatgaaatctcaaaaatcctttcttgttgactataacatcactctgatttacag
  |     | ||  | |||  |||| ||||| ||||||| || || ||||| ||||| |||||| | |||||||||||||| |||||||| |||||||||||| ||  ||| |||   |||  ||  | ||    | | |    |  | |  |   | | || ||   | |   |||  ||    |   |   ||    | 
TTCATGTGATGGTGCATCTCCTAGGTTGCCTATTGCACATATAGTGTGCAATCAAACACCACCAATGGGTGACAAGCCAAGTCTTATGACCTTCCGTGAGgtacatacaaacacactgcatctcaggtccagtagtttgacttctggctttcaggttaataattcaaatgtgagtgataattgactagattaaatgagta-

upper sequence: AT5G65620.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv00s0211g00060.t01 (Vitis vinifera), 5'ss of exon 10
GGCTCAGAAAGGCTCTTCTGTTAGGCTGCCTGTTGCACACATGGTCTGCAACCAAACTCCACCAGTAGGTGACAAGCCAAGCCTTATGACATTCCGTGAGgtaaatgaaaaaacatccattgcacttgcacatatctaagcgtaacatgaaatctcaaaaatcctttcttgttgactataacatcactctgatttacag-----
| | |   | ||  |    | |||| ||||| |||| || ||||| ||||| ||||| |||||||| ||  | || |||||||||||||||||||||||||||||||  ||   | | |   || ||||   ||||| |   |    | |  ||||       || |||||||   |          |||  |||         
GTCACGTGATGGTACCAAAGCTAGGTTGCCTATTGCTCATATGGTGTGCAATCAAACACCACCAGTGGGAAATAAACCAAGCCTTATGACATTCCGTGAGgtaaatggtaa---acctaacaca-ttgcttctatctcaagctgctttaatctctctctctctctctcttgtttttttctttgcttttctttttttttttttgt

upper sequence: AT5G65620.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv00s0211g00060.t01 (Vitis vinifera), 5'ss of exon 13
GGCTCAGAAAGGCTCTTCTGTTAGGCTGCCTGTTGCACACATGGTCTGCAACCAAACTCCACCAGTAGGTGACAAGCCAAGCCTTATGACATTCCGTGAGgtaaatgaaaaaacatccattgcacttgcacatatctaagcgtaacatgaaatctcaaaaatcctttcttgttgactataacatcactctgatttacag-----
| | |   | ||  |    | |||| ||||| |||| || ||||| ||||| ||||| |||||||| ||  | || |||||||||||||||||||||||||||||||  ||   | | |   || |||    ||||| |   |    | |  ||||       || |||||||   |          |||  |||         
GTCACGTGATGGTACCAAAGCTAGGTTGCCTATTGCTCATATGGTGTGCAATCAAACACCACCAGTGGGAAATAAACCAAGCCTTATGACATTCCGTGAGgtaaatggtaa---acctaacaca-ttgtttctatctcaagctgctttaatctctctctctctctctcttgtttttttctttgcttttctttttttttttttgt

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|86065054|gb|DR360811.1|DR360811
EST:     ACCAAACTCCACCAGTAGGTGACAAGCCAAGCCTTATGACATTCCGTGAG                         -TAGAGACAGTATTTCATGAATTTGGACATGCTCTTCAGCCACATGCTT
genomic: ACCAAACTCCACCAGTAGGTGACAAGCCAAGCCTTATGACATTCCGTGAGgtaaatgaaa ... tgatttacagGTAGAGACAGTATTTCATGAATTTGGACATGCTCTTCAGC-ACATGCTT
EST: gi|86065055|gb|DR360812.1|DR360812
EST:     ACCAAACTCCACCAGTAGGTGACAAGCCAAGCCTTATGACATTCCGTGAG                         GTAGAGACAGTATTTCATGAATTTGGACATGCTCTTCAGCACATGCTTACG
genomic: ACCAAACTCCACCAGTAGGTGACAAGCCAAGCCTTATGACATTCCGTGAGgtaaatgaaa ... tgatttacagGTAGAGACAGTATTTCATGAATTTGGACATGCTCTTCAGCACATGCTTACG