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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAGgttagtccgttagtgaaagtcatgttgtaccttggttaaaagttgggaaagattacttgaaatgtgtctaaaatgattttctctttttctgagttag

Basic information

species Arabidopsis thaliana
transcript AT1G73430.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G73430.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os08g34970.1 (Oryza sativa), 5'ss of exon 4
TTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAGgttagtccgttagtgaaagtcatgttgtaccttggttaaaagttgggaaagattacttgaaatgtgtctaaaatgattttctctttttctgagttag
||||||||||||||| |||| || |||||||| ||||| ||||||||| || | |  ||  |  || | |  ||   || |   || ||| |  | |  | |     |    ||  | |   |||  |              
TTCTACAAATGGTTTTCTGAACTGGAATCAGCTATGAAATCTGAGgtttgtgcat--gttcatttcttttgttag--tgatggcaacttgtggtaaaacaatgattttacccctctagtttatttgacag------------

upper sequence: AT1G73430.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA17G04990.1 (Glycine max), 5'ss of exon 4
TTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAGgttagtccgttagtgaaagtcatgttgtaccttggttaaaagttgggaaagattacttgaaatgtgtcta-aaatgattttctctttttctgagt-tag
||||||||||||||||| ||||||||||| || ||||| || ||||| ||| | |||||   |||| |||| | ||        |  ||| | || | |   |  | | ||  |    |   ||  ||   | ||  | | |||
TTCTACAAATGGTTTACGGATCTTGAATCTGCCATGAAATCAGAGGTCAgtac-ttagt---agtcttgttatgcc-------gacattgtgtaacactctgtttattttgattgcggactcttaacttagtctccaattgtag

upper sequence: AT1G73430.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv11s0016g00350.t01 (Vitis vinifera), 5'ss of exon 5
TTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAGgttagtccgttagtgaaagtcatgttgtaccttggttaaaagttgggaaagattacttgaaatgtgtctaaaatgattttctctttttctgagttag
||||| || ||||||||||||||||||||||| |||||||| |||||||||     ||||    || ||||| ||  |  ||    |||  |    |||   |||  || |  ||       |   || | |  |   ||||
TTCTATAAGTGGTTTACTGATCTTGAATCAGCCATGAAGTCAGAGgttagt-----agtggtt-tcttgttgcacaatatttg---gttatggtccattttgtgagttgggcatatggcatctgattcctctctttcattag

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|116477897|gb|EG520489.1|EG520489
EST:     TTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAG                         ACAGAGGAAAAGTATCGGCACTATGTTAGTACTTTAACTGAGCGCATCCAG
genomic: TTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAGgttagtccgt ... tctgagttagACAGAGGAAAAGTATCGGCACTATGTTAGTACTTTAACTGAGCGCATCCAG
EST: gi|116477890|gb|EG520482.1|EG520482
EST:     TTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAG                         ACAGAGGAAAAGTATCGGCACTATGTTAGTACTTTAACTGAGCGCATCCAG
genomic: TTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAGgttagtccgt ... tctgagttagACAGAGGAAAAGTATCGGCACTATGTTAGTACTTTAACTGAGCGCATCCAG
EST: gi|164007910|gb|ES013608.1|ES013608
EST:     ATCAGTTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAG                         ACAGAGGAAAAGTATCGGCACTATGTTAAGTACTTTAAC
genomic: ATCAGTTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAGgttagtccgt ... tctgagttagACAGAGGAAAAGTATCGGCACTATGTTA-GTACTTTAAC
EST: gi|116477895|gb|EG520487.1|EG520487
EST:     TTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAG                         ACAGAGGAAAAGTATCGGCACTATGTTAGTACTTTAACTGAGCGCATCCAG
genomic: TTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAGgttagtccgt ... tctgagttagACAGAGGAAAAGTATCGGCACTATGTTAGTACTTTAACTGAGCGCATCCAG
EST: gi|164173764|gb|ES040997.1|ES040997
EST:     ATCAGTTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAG                         ACAGAGGAAAAGTATCGGCACTATGTTAGTACTTTAAC
genomic: ATCAGTTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAGgttagtccgt ... tctgagttagACAGAGGAAAAGTATCGGCACTATGTTAGTACTTTAAC
EST: gi|116477891|gb|EG520483.1|EG520483
EST:     TTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAG                         ACAGAGGAAAAGTATCGGCACTATGTTAGTACTTTAACTGAGCGCATCCAG
genomic: TTCTACAAATGGTTTACTGATCTTGAATCAGCGATGAAGTCTGAGgttagtccgt ... tctgagttagACAGAGGAAAAGTATCGGCACTATGTTAGTACTTTAACTGAGCGCATCCAG