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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttctcag

Basic information

species Glycine max
transcript GLYMA13G43680.1
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 16
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 5'ss of exon 16
GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagt------gaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttctcag
|| || ||||||| ||| ||||| ||||| |||||||||||||||||||| || || ||||| || |||||| | |||||||| || || ||||  ||      || | | |||| ||  |  |     || || ||||    | | ||    || ||||||  ||                  
GTCACCACGATGTATCACTTGGATCGCCCTATGTACTTGTTGGGATATCTAGCGAATCAAAGCCGAGTTTATCTTATTGACAAGGAATTCAAgtgtgttttcttgataatactgcctgcttattgtctggtgttgaattct--tgaactaacatatttttcttgttgcag--------------

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G000645_T01 (Zea mays), 5'ss of exon 16
GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttct-cag
|| ||||| |||| ||||||||| ||||| |||||||||||||||||| |||| ||||||||||| |||||| | |||||||| ||||| ||||| ||      | |      |  | |      |||   ||| || |    ||   | || ||||  || ||| |   ||  | |||
GTCACTACAATGTATCATTTGGATCGCCCTATGTACTTGTTGGGATATATTGCGAACCAAAGTCGAGTTTATCTTATTGACAAGGAGTTGAAgtatgt------tttctcgaaaacaatgcttcctttcctttgtagca--tctgttaatttctctgactaacaaatagcttggtacag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G095348_T01 (Zea mays), 5'ss of exon 16
GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatc-ttgactacttttctgtttatcaattttttttctcag--
|| ||||| |||| ||||||||| ||||| |||||| | |||||||||||||| ||||||||||| |||||| | |||||||| ||||||||||  |       | |   |  |  | |      |||   ||| |  |     ||   | || | ||  || ||  |    ||   |   
GTCACTACAATGTATCATTTGGATCGCCCTATGTACCTATTGGGATATCTTGCGAACCAAAGTCGAGTTTATCTTATTGACAAGGAGTTTAAgtgcgc------tttctctaaaacaatgtttcctttcttttgtaacatctgctgttaatttctgtgactaacatataagcttgatacag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G086015_T01 (Zea mays), 5'ss of exon 1
--------GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttct-cag
        || ||||| |||| ||||||||| ||||| |||||| ||||||||||| |||| ||||||||||| |||||| | |||||||| ||||| ||||| ||      | |      |  | |      |||   ||| || |    ||   | || ||||  || ||| |   ||  | |||
ACTTACAGGTCACTACAATGTATCATTTGGATCGCCCTATGTACCTGTTGGGATATATTGCGAACCAAAGTCGAGTTTATCTTATTGACAAGGAGTTGAAgtatgt------tttctcgaaaacaatgcttcctttcctttgtagca--tctgttaatttctctgactaacaaatagcttggtacag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G443953_T03 (Zea mays), 5'ss of exon 17
GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttctcag
|| ||||| |||||||| ||||| || || ||||| || || ||||||||||| |||||||||||||| ||| | |||||||| || ||||||||||    | | | || |   |  |||  |  ||    || || | || |    |    || ||   |  | |||||| |  |||
GTTACTACAATGTTTCACTTGGATCGGCCTATGTATTTATTAGGATATCTTGCTAACCAAAGTCGTGTATATCTTATTGACAAGGAATTTAAgtaagcagca-tgcagcatacctacttctgatcttc---ttaca-tgatgtgtttttgggttatgacaacaatttttttattacag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G448913_T01 (Zea mays), 5'ss of exon 5
GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttct-cag
                     || ||||| |||||| ||||||||||| |||| ||||||||||| |||||| | |||||||| ||||| ||||| ||      | |      |  | |      |||   ||| || |    | |  | || ||||  || ||| |   ||  | |||
---------------------GATCGCCCTATGTACCTGTTGGGATATATTGCGAACCAAAGTCGAGTTTATCTTATTGACAAGGAGTTGAAgtatgt------tttctcgaaaacaatgcttcctttcctttgtagcatctatta--atttctctgactaacaaatagcttggtacag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G141587_T05 (Zea mays), 5'ss of exon 16
---GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttg-actacttttctgtttatc--aattttttttctcag
   || || ||  ||||||| ||||| || || ||||| || || |||||||||||||||||||| ||||| ||| | ||||| ||  | ||||||| |||  | |||         ||| | ||   ||  | ||| |||  |  |  || | || | ||  ||    |  || || |  |||
CAGGTCACAACTTTGTTTCACTTGGATCGGCCAATGTATTTATTAGGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAAgtgagttcatcttt-------gttactaaa---ttccacttgtagtttttgtacacaagttctgtggctaatgtaccttattattgcag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G141587_T02 (Zea mays), 5'ss of exon 16
GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttg-actacttttctgtttatc--aattttttttctcag
|| || ||  ||||||| ||||| || || ||||| || || |||||||||||||||||||| ||||| ||| | ||||| ||  | ||||||| |||  | |||         ||| | ||   ||  | ||| |||  |  |  || | || | ||  ||    |  || || |  |||
GTCACAACTTTGTTTCACTTGGATCGGCCAATGTATTTATTAGGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAAgtgagttcatcttt-------gttactaaa---ttccacttgtagtttttgtacacaagttctgtggctaatgtaccttattattgcag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 16
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 20
GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttctcag
|||||||| |||| |||| ||||||| || |||||||||||||| ||||| || || |||||  | ||||||||||||||||||||||| |||||||   |  || | ||   || |||   |    |   ||| |     |||    |||| | |||  |    ||| |  |  |||
GTAACTACAATGTATCATCTGGACCGTCCTATGTACTTGTTGGGTTATCTCGCTAATCAAAGCAGGGTTTATTTGATTGACAAAGAGTTCAAgtaagcagatgttttactgttatgattgctaacaatgttttgtaa----cttactgacttctgtgtccac---tttatgattacag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 16
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 5'ss of exon 16
GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaacttctgcttggattattcaaa---gttttaaattgcagtaatcttgactacttttctgtttatcaattttttttctcag-----
||||| || |||| ||||||||||||||| ||||| ||||| || ||| |||| |||||||| || ||||| ||| | |||||||| || ||||| ||    |||    |  | |||||  |    ||||||  |||||   ||  |   | ||    | |||  |  ||||| ||   |      
GTAACCACAATGTATCATTTGGACCGCCCAATGTATTTGTTAGGCTATATTGCCAACCAAAGCCGGGTTTACTTGGTAGACAAAGAATTCAAgtacgttc--ctttatatatgtttatttgagactgttttatcttgcatacataat--ttgctaacatatttccc--tttttcttgggaatgcag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 16
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 16
GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttct-cag
||||| || |||| ||||||||||||||| ||||| |||||||||||||||||||  |||||||| ||||  ||| | |||||||| || |||||||||   |||    |||  |  ||  |   || | ||||   ||    |  ||  |   |||||   |  |||| |   | |||
GTAACCACAATGTATCATTTGGACCGCCCAATGTATTTGTTGGGATATCTTGCAAGTCAAAGTCGGGTTTTCTTGGTAGACAAAGAATTCAAgtaagtg---cttagatttgtgtgtttatataattgagattgttctagaagtttctgatg--ctgttcccctgttttgtggatgcag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 16
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 16
GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgttta--tcaattttttttctcag-----
||||| || ||||||||||||||||| || ||||| |||||||||||||| || || ||||| || || ||| | || ||||||||||| |||| |||| |  ||  ||    |         |       |||  ||| |  | ||  ||||  | || |  |   ||||  || |||      
GTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAAgtgagtggacttttggcagaaagggggagtggagggtggttgttgtattgctaacatctttattattaagttggtttttccttttcaatgcag

upper sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 16
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 16
GTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttt---tctgtttatcaattttttttctcag
||||| || |||||||| |||||||| || ||||| ||||| ||||||||||| |  |||||||| |||||| | || |||||||||||||||| || ||   |      || | |  |  ||  |      |   ||  |  | | |  | |   | | |||||   || | ||   |||
GTAACCACCATGTTTCACTTGGACCGGCCTATGTATTTGTTAGGATATCTTGCCAGTCAAAGTCGCGTTTATCTTATAGACAAAGAGTTTAAgtgagggagcttgggagctgcacttctgcaatctgactgcttttgttcttgtaattgatctaaatttatttat--gttatcttatgcag

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|298199623|gb|HO043500.1|HO043500
EST:     GGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA                         TGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGT
genomic: GGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAAgtaagtgaaa ... tttttctcagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGT