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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGGCAGAAGTTCGGATAGCAGCTGCTGGAAAAGTTACCAAGTTTTGTCGCATTTTAAACCCTGAACTCGCTATCCAGCACATTCTTCCCTGTGTAAAGgtacacacttaagaagagtgtgttgatttcatattatgcaaaggaccaaaatactgtcggtgtttgctaagcttacctataaatctacacgtag

Basic information

species Arabidopsis thaliana
transcript AT1G13320.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G164352_T04 (Zea mays), 5'ss of exon 6
TGAGGCAGAAGTTCGGATAGCAGCTGCTGGAAAAGTTACCAAGTTTTGTCGCATTTTAAACCCTGAACTCGCTATCCAGCACATTCTTCCCTGTGTAAAGgtacacacttaagaagagtgtgttgatttcatattat-gcaaaggaccaaaatactg--tcggtgtttgctaagcttacctataaatctacacgtag
|||||| ||||| ||||||||||||||||||||||| || |||||||| ||||| ||||| ||| | ||| |  |||| || |||||||| || || |||||     |   | |  | |   |  |   ||| |  | || |     |     | ||  |       ||| |||   | ||| |             
TGAGGCTGAAGTGCGGATAGCAGCTGCTGGAAAAGTAACTAAGTTTTGCCGCATATTAAATCCTCAGCTCTCAGTCCAACATATTCTTCCATGCGTTAAGgtgggggc---aaagcaattattgaacaccatttcgttgctatttttcttctgagtgaattaactcatgccaagtgcatctacag------------

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G102858_T01 (Zea mays), 5'ss of exon 6
TGAGGCAGAAGTTCGGATAGCAGCTGCTGGAAAAGTTACCAAGTTTTGTCGCATTTTAAACCCTGAACTCGCTATCCAGCACATTCTTCCCTGTGTAAAGgtacacacttaagaagagtgtgttgatttcatattatgcaaaggaccaaaatactgtcggtgtttgctaagcttacctataaatctacacgtag
|||||| ||||| ||||| |||||||||||||||||||| || || ||    || ||||||||  || | || ||  | || |||||||| ||| | |||||      ||||| |  |       | |    |||  ||   | ||||| ||    || ||| ||     |  | ||| |   | ||| | |||
TGAGGCTGAAGTGCGGATTGCAGCTGCTGGAAAAGTTACAAAATTCTGCAAAATATTAAACCCACAAATTGCAATTGAACATATTCTTCCGTGTATCAAGgtgtgt--ttaagcattgcacaaacact----attgagctctgcaccaatat----tcagtggttaacttg--tgccttt---tgtactcatag

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA20G24790.1 (Glycine max), 5'ss of exon 6
TGAGGCAGAAGTTCGGATAGCAGCTGCTGGAAAAGTTACCAAGTTTTGTCGCATTTTAAACCCTGAACTCGCTATCCAGCACATTCTTCCCTGTGTAAAGgtacacactt-----aagaagagtgtgttgatttcatattatgcaaaggaccaaaatactgtcggtg--tttgctaagcttaccta------taaatctacacgtag-------------------------------
|||||| ||||| || |||||||||||||||||||| ||||||||||| || |||||||| || || || || || ||||| |||||||| ||||| |||||| |||  |     ||  | | | |      || ||||||   |    |   | |  || ||  ||  |||| |  |   |   |      ||||| || |  ||                                
TGAGGCTGAAGTACGCATAGCAGCTGCTGGAAAAGTGACCAAGTTTTGCCGGATTTTAAATCCAGATCTTGCAATTCAGCATATTCTTCCTTGTGTGAAGgtatacatctttggaaaagaaattataacacattaatattactgattatatacagaggctttccttggttttggtttgtcaattcagtaggataaatttatatttacaggtttaagttctttgaaacaacttttgcag

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA10G42250.1 (Glycine max), 5'ss of exon 6
TGAGGCAGAAGTTCGGATAGCAGCTGCTGGAAAAGTTACCAAGTTTTGTCGCATTTTAAACCCTGAACTCGCTATCCAGCACATTCTTCCCTGTGTAAAGgtacacactt-----aagaagagtgtgttgatttcatattatgcaaaggaccaaaatactgtcggtg--tttgctaagcttaccta------taaatctacacgtag-------------------------------
|||||| ||||| || |||||||||||||||||||| ||||||||||| || |||||||| || || ||  | || ||||| |||||| | ||||| |||||| |||  |     ||  | | | |      ||  |||||   |    |   | |  || |   ||  |||| |  |   |   |      ||||| || |  ||                                
TGAGGCTGAAGTGCGCATAGCAGCTGCTGGAAAAGTGACCAAGTTTTGCCGGATTTTAAATCCAGATCTTTCAATTCAGCATATTCTTTCTTGTGTGAAGgtatacatctttggaaaagaaattataacacattagtattactgattatatacagaggcttttcttggttttggttggtcaattcagtatgctaaatttatatttacaggtttaagttctttgaaacaacttttgcag

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA02G10790.2 (Glycine max), 5'ss of exon 6
TGAGGCAGAAGTTCGGATAGCAGCTGCTGGAAAAGTTACCAAGTTTTGTCGCATTTTAAACCCTGAACTCGCTATCCAGCACATTCTTCCCTGTGTAAAGgtacacacttaagaagagtgtgttgatttcatattatgcaaaggaccaaaatactgtcggtgtttgctaagcttacctataaatctacacgtag
||| || ||||| ||||| ||||||||||| ||||| ||||||||||| || || ||||| || || ||  | || ||||| |||||||| || || |||||      ||       || |    |||   |||| || |    |   | |  ||       ||||| |    |    |               
TGAAGCTGAAGTACGGATTGCAGCTGCTGGGAAAGTGACCAAGTTTTGCCGGATATTAAATCCAGATCTTTCAATTCAGCATATTCTTCCTTGCGTGAAGgtgtctctttggttttggtcttgaaattcagtattctgaattatatttacaggctaaaatactttgcaagatctttgcag--------------

upper sequence: AT1G13320.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv01s0011g03280.t01 (Vitis vinifera), 5'ss of exon 5
TGAGGCAGAAGTTCGGATAGCAGCTGCTGGAAAAGTTACCAAGTTTTGTCGCATTTTAAACCCTGAACTCGCTATCCAGCACATTCTTCCCTGTGTAAAGgtacacac--ttaagaagagtgtgttgatttcatattatgcaaaggaccaaaatactgtcggtgtt--tgctaagcttacctataaatctacacgtag----------------------------
|||||| ||||| || |||||||||||||| ||||| || || || ||||  || ||||| || ||||| || || || || |||||||||||||||||||| | |||  |||  || || |||||   |   ||||||  || |   |    |  |  ||   ||  |  | |||| |  |  |  | |  |  |                              
TGAGGCTGAAGTACGAATAGCAGCTGCTGGCAAAGTAACTAAATTCTGTCAGATCTTAAATCCAGAACTTGCAATTCATCATATTCTTCCCTGTGTAAAGgtgctcacgtttattaaaagagtgttt-ctctgtattatataatgtctccttttgttcacgaacttactattgagctaatgtgcacctgttgagctttctcaatatttggtgatgtcattttgtag

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|124913184|gb|EH987058.1|EH987058
EST:     TATCCAGCACATTCTTCCCTGTGTAAAG                         GAATTATCATCAGACTCTTCTCAGCACGTCAGAT
genomic: TATCCAGCACATTCTTCCCTGTGTAAAGgtacacactt ... ctacacgtagGAATTATCATCAGACTCTTCTCAGCACGTCAGAT
EST: gi|116425646|gb|EG468238.1|EG468238
EST:     GCATTTTAAACCCTGAACTCGCTATCCAGCACATTCTTCCCTGTGTAAAG                         GAATTATCATC
genomic: GCATTTTAAACCCTGAACTCGCTATCCAGCACATTCTTCCCTGTGTAAAGgtacacactt ... ctacacgtagGAATTATCATC
EST: gi|116425639|gb|EG468231.1|EG468231
EST:     GCATTTTAAACCCTGAACTCGCTATCCAGCACATTCTTCCCTGTGTAAAG                         GAATTATCATCAGACTCTTCTCAGCACGTCAGATCTGCATTGGCATCAGTT
genomic: GCATTTTAAACCCTGAACTCGCTATCCAGCACATTCTTCCCTGTGTAAAGgtacacactt ... ctacacgtagGAATTATCATCAGACTCTTCTCAGCACGTCAGATCTGCATTGGCATCAGTT