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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCCAAATCAGGGATTCAGATGGAAACATATGTCCAAACATCCGAATAGCTGATTGTGGTCACAAAATTGGTTTAAATGGAGTTGATAATGGCCGTATCTGgtaatatatacatttttcaaacaagttgcacctgaaaaatgaattttatataaaagagtaaacgcagaaattattcacatgtgtcttcag

Basic information

species Glycine max
transcript GLYMA06G43840.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G43840.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os06g24704.1 (Oryza sativa), 5'ss of exon 4
CCCAAATCAGGGATTCAGATGGAAACATATGTCCAAACATCCGAATAGCTGATTGTGGTCACAAAATTGGTTTAAATGGAGTTGATAATGGCCGTATCTGgtaa-tatatacatttttcaaacaagttgcacctgaaaaatgaattttatataaaagagtaaacgcagaaattattcacatgtgtcttcag
| || || ||||||  | ||| |||  |    || || ||||  |||||||| ||||| || |||||||| |||||||| ||||||||||| || || |||| |     |  | || |  ||    |||       |  | | |  || ||      | | ||   |    |   |||             
CTCAGATTAGGGATGAACATGAAAATGTTATGCCTAATATCCAGATAGCTGACTGTGGCCATAAAATTGGATTAAATGGTGTTGATAATGGACGAATTTGgtgagcccttgtacttctgtaaagttttgtcttcctatcacgcacattgta------aattaatttaactgtctgtcag------------

upper sequence: GLYMA06G43840.1 (Glycine max), 5'ss of exon 4
lower sequence: AT1G06310.1 (Arabidopsis thaliana), 5'ss of exon 4
CCCAAATCAGGGATTCAGATGGAAACATATGTCCAAACATCCGAATAGCTGATTGTGGTCACAAAATTGGTTTAAATGGAGTTGATAATGGCCGTATCTGgtaatatatacatttttcaaacaagttgcacctgaaaaatgaattttatataaaaga-gtaaac---gcagaaattattcacatgtgtcttcag
| |||||||| |||   ||||| |||| |||||| ||| |||| |||||||| ||||| |||||||||||||| ||||| ||||| ||||||||||| |||||||  | |||  ||      | |||  |     |   |  || || || ||| |  ||  ||     |   |  |||      ||| |  ||
CTCAAATCAGAGATCATGATGGCAACACATGTCCTAACGTCCGCATAGCTGACTGTGGACACAAAATTGGTTTGAATGGTGTTGACAATGGCCGTATATGgtaatgcacacaactta-----atgttatat----agtttttatcttgtacaaagggtgtgtacttcatatggaagattgtaccatgtttatag

upper sequence: GLYMA06G43840.1 (Glycine max), 5'ss of exon 4
lower sequence: AT1G06290.1 (Arabidopsis thaliana), 5'ss of exon 4
CCCAAATCAGGGATTCAGATGGAAACATATGTCCAAACATCCGAATAGCTGATTGTGGTCACAAAATTGGTTTAAATGGAGTTGATAATGGCCGTATCTGgtaatatatacatttttcaaacaagttgcacctgaaaaatgaattttatataaaagagtaaacgcagaaattattcacatgtgtcttcag
||||||||||||||  |||||| | |||||||||||| ||||| || ||||| ||||| |||||||||||| ||||||| ||||| |||||||| ||||||||  | | |||  |          || |   |    | |  || |||||  || |      |   | ||   | ||| | ||  | |||
CCCAAATCAGGGATCAAGATGGCAGCATATGTCCAAATATCCGCATTGCTGACTGTGGACACAAAATTGGTCTAAATGGTGTTGACAATGGCCGGATCTGgtataacacacaactcc------gtttactttt----attttatcttatactaaggtaacttcaatggaagattgcac-tttgattgcag

upper sequence: GLYMA06G43840.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv12s0028g02660.t01 (Vitis vinifera), 5'ss of exon 4
CCCAAATCAGGGATTCAGATGGAAACATATGTCCAAACATCCGAATAGCTGATTGTGGTCACAAAATTGGTTTAAATGGAGTTGATAATGGCCGTATCTGgtaatatatacatttt------tcaaacaagttg---------cacctgaaaaatgaattttata----taaaagagt-aaacgcagaaatt---attcacatgtgtcttcag
|||| ||||| ||| ||||||| ||||| ||||||||  | ||  |||||||||||||||| ||||||||||||||||| || |||||||| || |||||||||||   ||| |||      | ||||  | ||          |  | |  | ||| || | |     ||||| | |  ||| ||| |      ||  | |||| | || ||
CCCAGATCAGAGATACAGATGGCAACATTTGTCCAAATGTTCGTGTAGCTGATTGTGGTCATAAAATTGGTTTAAATGGTGTGGATAATGGTCGAATCTGgtaataataacagtttctgtggttaaacttgctgactagtcaataagtcatgattgatttctgtgaatctaaaatatttgaactcaggaggctcaatcaatatgtttttttag

upper sequence: GLYMA06G43840.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S37_122V6.1 (Physcomitrella patens), 5'ss of exon 4
CCCAAATCAGGGATTCAGATGGAAACATATGTCCAAACATCCGAATAGCTGATTGTGGTCACAAAATTGGTTTAAATGGAGTTGATAATGGCCGTATCTGgtaa-tatatacatttttcaa-----acaagttgcacc--tgaaaaa----tgaatt-ttatataaaagagtaaacgcagaaattat-tcacatgtgtcttcag------------------------------
  ||  |  |||||  | ||||  |  |    ||    || || || || ||||||||||||||||||||||| ||||| || || ||||| ||||| |||| | |||  ||  || | |      || |||   |    ||||| |    || ||| || | |    || ||| ||    | || | | |  | |     ||                               
GTCAGTTACGGGATCAATATGGCCATGTTATGCCTGGGATACGCATCGCCGATTGTGGTCACAAAATTGGTTTGAATGGCGTGGACAATGGTCGTATTTGgtgagtattaacggttcttagtttgcactagtaaaattggtgaaagaacagtgcattgttttttgctcgaataatcgttctatttctatgaagtattatgccatctcactctaaacaacacaaactgttggtag

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|9902565|gb|BE611596.1|BE611596
EST:     GATTGTGGTCACAAAATTGGTTTAAATGGAGTTGATAATGGCCGTATCTG                         GTTTGATAATGTGAGGATACCCAGAGAGAATTTGTTGAATTCTGTGGCTGA
genomic: GATTGTGGTCACAAAATTGGTTTAAATGGAGTTGATAATGGCCGTATCTGgtaatatata ... gtgtcttcagGTTTGATAATGTGAGGATACCCAGAGAGAATTTGTTGAATTCTGTGGCTGA
EST: gi|33390491|gb|CA853686.1|CA853686
EST:     GATTGTGGTCACAAAATTGGTTTAAATGGAGTTGATAATGGCCGTATCTG                         GTTTGATAATGTGAGGATACCCAGAGAGAATTTGTTGAATTCTGTGGCTGA
genomic: GATTGTGGTCACAAAATTGGTTTAAATGGAGTTGATAATGGCCGTATCTGgtaatatata ... gtgtcttcagGTTTGATAATGTGAGGATACCCAGAGAGAATTTGTTGAATTCTGTGGCTGA
EST: gi|192331590|gb|FK023437.1|FK023437
EST:     GATTGTGGTCACAAAATTGGTTTAAATGGAGTTGATAATGGCCGTATCTG                         GTTTGATAATGTGAGGATACCCAGAGAGAATTTGTTGAATTCTGTGGCTGA
genomic: GATTGTGGTCACAAAATTGGTTTAAATGGAGTTGATAATGGCCGTATCTGgtaatatata ... gtgtcttcagGTTTGATAATGTGAGGATACCCAGAGAGAATTTGTTGAATTCTGTGGCTGA
EST: gi|7691519|gb|AW759645.1|AW759645
EST:     GATTGTGGTCACAAAATTGGTTTAAATGGAGTTGATAATGGCCGTATCTG                         GTTTGATAATGTGAGGATACCCAGAGAGAATTTGTTGAATTCTGTGGCTGA
genomic: GATTGTGGTCACAAAATTGGTTTAAATGGAGTTGATAATGGCCGTATCTGgtaatatata ... gtgtcttcagGTTTGATAATGTGAGGATACCCAGAGAGAATTTGTTGAATTCTGTGGCTGA