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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTGCTCTTGGAGCTGCGAAAGGCCTTGCTTTCCTCCACAATGCTGAAAGACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagttattcttttctttctgctttgccaaagttgctccaagatattgggaatacctttccacaactaatatatccttgattgggctgatgaaccttcag

Basic information

species Arabidopsis thaliana
transcript AT5G01020.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G01020.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os11g02830.2 (Oryza sativa), 5'ss of exon 4
GATTGCTCTTGGAGCTGCGAAAGGCCTTGCTTTCCTCCACAATGCTGAAAGACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgt-aagcagttattcttttc-----tttctgctttgccaaagttgctccaag---atattgggaatacctttccacaactaata-tatccttgattgggctgatgaaccttcag--
||||||  | |||||||| |||||  | |||| |||||||||||||||||| ||  |||| || |||||||||||||| || ||||| ||||| ||||| ||  || ||   |||||  |      || |  |||  |     |  || | |    | |||||||||  |    |    | ||| || | || ||        || || | ||   
GATTGCATTAGGAGCTGCCAAAGGGTTAGCTTGCCTCCACAATGCTGAAAGGCCAATTATCTACAGGGATTTCAAGACATCAAATATTCTGCTGGACTCAgttgagtagcatttcttgccaatatcttgttttttttcctttctcttctatgcatctgttgggaatatgtaaatatttttcataatagcatttatcttttatttgcacttacacag

upper sequence: AT5G01020.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os12g02810.1 (Oryza sativa), 5'ss of exon 4
GATTGCTCTTGGAGCTGCGAAAGGCCTTGCTTTCCTCCACAATGCTGAAAGACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgt-aagcagttattcttttc-------tttctgctttgccaaagttgctccaagatattgggaatacctttccacaactaata-tatccttgattgggctgatgaaccttcag--
||||||  | || ||||| |||||  | |||| |||||||||||||||||| ||  |||| || |||||||||||||| || ||||| ||||| ||||| ||  || ||   ||||| ||       | | |  |||  |     |  || | | | |||||||||  |    |    | ||| || | || ||        |  || | ||   
GATTGCATTAGGGGCTGCCAAAGGGTTAGCTTGCCTCCACAATGCTGAAAGGCCAATTATCTACAGGGATTTCAAGACATCAAATATTCTGCTGGACTCAgttgagtagcatttcttgtcaatgtcttgttttttttttcctttctcttctatgctgttgggaatatgtaaatatttttcataataacatttatcttttatttacacttacacag

upper sequence: AT5G01020.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G007283_T02 (Zea mays), 5'ss of exon 4
GATTGCTCTTGGAGCTGCGAAAGGCCTTGCTTTCCTCCACAATGCTGAAAGACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagttattcttttctttctgctttgccaaagttgctccaagatattgggaatacctttccacaactaatatatccttgattgggctgatgaaccttcag---------------
 || || || |||||||| ||||| ||||||| ||||||||||||| |||| || || || || || ||||||||||| || ||||| || || ||||| ||     ||||  |  ||| |  |||||        ||  ||      ||||  |  |    ||||    ||||| ||   || |||   |  | | | |   |               
AATCGCACTGGGAGCTGCTAAAGGGCTTGCTTGCCTCCACAATGCTCAAAGGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCTgttgagtgttaaccacttcctcatgcttccttctcctttttcagttccattgctatca----tccaatggtaatacatatatgtttgacatatttatcttcttgtttccgttgccacag

upper sequence: AT5G01020.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA18G45200.1 (Glycine max), 5'ss of exon 4
-GATTGCTCTTGGAGCTGCGAAAGGCCTTGCTTTCCTCCACAATGCTGAAAGACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagttattcttttctttctgctttgccaaagttgctccaagatattgggaatacctttccacaactaatatatccttgattgggctgatgaaccttcag---
 ||||||||||||||| || ||||| ||||| || ||||||||||||||||| || || || ||| | || ||||| || || |||||| |  | |||||||||||    |  | ||||     |  ||   |   ||||      |    ||  |  |  |    || | |  ||| |  || | || | |    ||          
TGATTGCTCTTGGAGCAGCCAAAGGACTTGCCTTTCTCCACAATGCTGAAAGGCCTGTAATCTATCGTGACTTCAAAACGTCTAATATATTATTGGACTCcgtaagtttctggtattttgaagttaattaatctgtgttgtattttgtggctgttataaaatagttactaat--tatttttttcactgtgttcccaaatgactgtata

upper sequence: AT5G01020.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA09G40650.1 (Glycine max), 5'ss of exon 4
GATTGCTCTTGGAGCTGCGAAAGGCCTTGCTTTCCTCCACAATGCTGAAAGACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagttattcttttctttctgctttgccaaagttgctccaagatattgggaatacctttccacaactaatatatccttg-attgggctgatgaac--cttcag
||||||||||||||| || ||||| ||||| || ||||||||||||||||| || || || ||| | || ||||| || || |||||| |  | |||||||||||    |  | ||||     |  ||   |    |||       || ||  |  |    |     |  || ||| |  ||  | || | |    ||   ||  ||
GATTGCTCTTGGAGCAGCCAAAGGACTTGCCTTTCTCCACAATGCTGAAAGGCCTGTAATCTATCGCGACTTCAAAACCTCTAATATATTATTGGACTCCgtaagtttctgatattttgaagttaattaatctgtattgt------attttatggctgttatgatggagttactattttttttcactgtgttcccaaatgactatag

upper sequence: AT5G01020.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv08s0056g00150.t01 (Vitis vinifera), 5'ss of exon 4
GATTGCTCTTGGAGCTGCGAAAGGCCTTGCTTTCCTCCACAATGCTGAAAGACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagttattcttttctttctgctttgccaaag------ttgctccaagatattg-ggaatacctttccacaactaatatatccttgattgggctgatgaaccttcag
||||||||| || ||||||||||| |||||||||||||| ||||||||||| || || || ||| |||| ||||| || || |||||| |  | ||||| ||||| ||  |||  ||     |   || |||||        || |||   |  ||   || | |    | |||  ||  | || |||        | | |||| || |||
GATTGCTCTGGGTGCTGCGAAAGGGCTTGCTTTCCTCCATAATGCTGAAAGGCCTGTAATCTATCGGGACTTCAAAACGTCTAATATATTATTAGACTCTgtaagtagc-atttcttaaaaccacattagccaagacatttttttctcattgccatcatgggagaatgcttcactcctgtt-taccctgctaatcaccggtgaatctacag

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|163999159|gb|EL986414.1|EL986414
EST:     CGGTTATTTATAGGGA-TTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTA
genomic: CGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTA
EST: gi|116406701|gb|EG449293.1|EG449293
EST:     GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCA
genomic: GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCC-AAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCA
EST: gi|47829930|gb|CK119614.1|CK119614
EST:     GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
genomic: GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
EST: gi|47830578|gb|CK120262.1|CK120262
EST:     GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
genomic: GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
EST: gi|86072121|gb|DR367878.1|DR367878
EST:     GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
genomic: GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
EST: gi|124915591|gb|EH989465.1|EH989465
EST:     CCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
genomic: CCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
EST: gi|125009731|gb|EL082000.1|EL082000
EST:     ATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGAACCCCA
genomic: ATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGA-CCCCA
EST: gi|116406702|gb|EG449294.1|EG449294
EST:     GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
genomic: GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGATTTTGGCTTAGCTAAAGCTGGACCCCAG
EST: gi|116447999|gb|EG490591.1|EG490591
EST:     GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCC                         GACTACACCGCCAAGCTTTCAGA
genomic: GACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagtt ... gaaccttcagGACTACACCGCCAAGCTTTCAGA