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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGCTGAGGAATTGTTCGAGACAATATCGCAAGCACTTCTCTCATCTGTTGACCGTGATTGTCTGAGTGGTTGGGGAGGGCATGTTTACATTGTgtaagttctcatttcttctcttcttttccacacatttgttatccaaaattagttcttaaaacaaacttccatggtgatgtgttgtacag

Basic information

species Arabidopsis thaliana
transcript AT1G21720.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G21720.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA04G42830.1 (Glycine max), 5'ss of exon 4
GAAGCTGAGGAATTGTTCGAGACAATATCGCAAGCACTTCTCTCATCTGTTGACCGTGATTGTCTGAGTGGTTGGGGAGGGCATGTTTACATTGTgtaagttctcatttcttctcttcttttccacacatttgttatccaaaattagttcttaaaacaaacttccatggtgatgtgttgtacag----------------
||| | || ||||||||||||||||| || |||||||| || |||||||| || ||||||||| | ||||| ||||| || ||||||||  ||||||||| |    | |  ||||  | | ||  |  | |||      || |||    | |||  |    | | ||   |   |   | ||                  
GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTAGATCGTGATTGTTTAAGTGGCTGGGGTGGACATGTTTATGTTGTgtaagct----tatgatctccgcatctcatcgtagttgac-cataagattttggcataatgccgtatccaatttgggaattaggcactaagcattcatattttta

upper sequence: AT1G21720.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA14G24270.2 (Glycine max), 5'ss of exon 5
GAAGCTGAGGAATTGTTCGAGACAATATCGCAAGCACTTCTCTCATCTGTTGACCGTGATTGTCTGAGTGGTTGGGGAGGGCATGTTTACATTGTgtaagttctcat-ttcttctcttcttttccacacatttgtta--tccaaaattagttcttaaaacaaacttccatggtgatgtgttgtacag---------
||| | ||||||||||| ||||| || || |||||||| || |||||||| || ||||||||| ||||||| |||||||| ||||| ||  ||||||||| |  ||  ||||  |  ||||  |       |  |||  |    |  |  | ||     |||  | ||||     |   |||||||          
GAACCAGAGGAATTGTTTGAGACCATCTCCCAAGCACTGCTATCATCTGTAGATCGTGATTGTTTGAGTGGCTGGGGAGGACATGTCTATGTTGTgtaagcttacaaattctgattctcttagcagtttgatctttagatttttagatgctgctgttgtcaatttcccatctgagtac-ttgtacaagccactggc

upper sequence: AT1G21720.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA13G10130.1 (Glycine max), 5'ss of exon 5
GAAGCTGAGGAATTGTTCGAGACAATATCGCAAGCACTTCTCTCATCTGTTGACCGTGATTGTCTGAGTGGTTGGGGAGGGCATGTTTACATTGTgtaagttct--catttcttctcttctt-----------ttccacacatttgttatccaaaattagttcttaaaacaaacttccatggtgatgtgttgtacag
||| | ||||||||||| ||||| || || |||||||| || |||||||| || ||||||||| ||||||| |||||||| ||||| ||  ||||||||| | |   | ||||  |  ||||            |  | |  ||| |   |     | | ||  | |   ||   | ||   | |     | | |  
GAACCAGAGGAATTGTTTGAGACCATCTCCCAAGCACTGCTATCATCTGTAGATCGTGATTGTTTGAGTGGCTGGGGAGGACATGTCTATGTTGTgtaagctttacaaattctgattctcttagtagtttggtctttagatttttatatgctcttgtcaatttctgagctaagtattcacatttactgtatatgc--

upper sequence: AT1G21720.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA14G24270.3 (Glycine max), 5'ss of exon 5
GAAGCTGAGGAATTGTTCGAGACAATATCGCAAGCACTTCTCTCATCTGTTGACCGTGATTGTCTGAGTGGTTGGGGAGGGCATGTTTACATTGTgtaagttctcat-ttcttctcttcttttccacacatttgtt--atccaaaattagttcttaaaacaaacttccatggtgatgtgttgtacag-------
||| | ||||||||||| ||||| || || |||||||| || |||||||| || ||||||||| ||||||| |||||||| ||||| ||  ||||||||| |  ||  ||||  |  ||||  |       |  ||  ||    |  |  | ||     |||  | ||||     |   |||||||        
GAACCAGAGGAATTGTTTGAGACCATCTCCCAAGCACTGCTATCATCTGTAGATCGTGATTGTTTGAGTGGCTGGGGAGGACATGTCTATGTTgtgtaagcttacaaattctgattctcttagcagtttgatctttagatttttagatgctgctgttgtcaatttcccatctgagtac-ttgtacaagccactg

upper sequence: AT1G21720.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv18s0001g02260.t01 (Vitis vinifera), 5'ss of exon 6
GAAGCTGAGGAATTGTTCGAGACAATATCGCAAGCACTTCTCTCATCTGTTGACCGTGATTGTCTGAGTGGTTGGGGAGGGCATGTTTACATTGTgtaag-ttctcatttcttctcttcttttccaca-----catttgttatccaaaattagttcttaaaacaaacttccatggtgatgtgttgtacag-----
||| |||||||||| || ||||  || || |||||||| |||||||| || || ||||| ||  |||||||||||||||| ||||| ||  ||||||||| ||||| |    |   ||||  | || |      | || |  ||  |  |||||  |||      | ||  ||  | |||   |  |        
GAACCTGAGGAATTATTTGAGATCATCTCTCAAGCACTGCTCTCATCAGTAGATCGTGACTGCTTGAGTGGTTGGGGAGGACATGTCTATGTTGTgtaagcttctcttgctctgctttctactgcatagaaaataattatgttctgagcttagtatttatccatcaatttgataataatggaatccaagtgtgct

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|86076686|gb|DR372443.1|DR372443
EST:     TCTGTTGACCGTGATTGTCTGAGTGGTTGGGGAGGGCATGTTTACATTGT                         AACACCAACAGAGATTAAGGAGAGGATCCTAAAGGGAAGGATGGATTGATC
genomic: TCTGTTGACCGTGATTGTCTGAGTGGTTGGGGAGGGCATGTTTACATTGTgtaagttctc ... tgttgtacagAACACCAACAGAGATTAAGGAGAGGATCCTAAAGGGAAGGATGGATTGATC
EST: gi|125072021|gb|EL136861.1|EL136861
EST:     CGTGATTGTCTGAGTGGTTGGGGAGGGGCATGTTTACATTGT                         AACACCAACAGAGATTAAGGAGAGGATCCTAAAGGGAAGGATGGATTGATC
genomic: CGTGATTGTCTGAGTGGTTGGGGA-GGGCATGTTTACATTGTgtaagttctc ... tgttgtacagAACACCAACAGAGATTAAGGAGAGGATCCTAAAGGGAAGGATGGATTGATC