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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggtgttcttagatgtctttgactttcctcatgagattttgtatttattgttttcacccgttgagtaattccagcatttttgtttacactactagGATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCGTCAAACTTGTGTACTGAGATAATTGAATATTCAAGTCCAACTGAAACTG

Basic information

species Glycine max
transcript GLYMA06G15350.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G15350.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os06g07210.1 (Oryza sativa), 3'ss of exon 8
--------------------------gtggtgttcttaga--tgtctttgactttcctcatgagattttg-tatttattgttttcacccgttgagtaattccagcatttttgtttacactactagGATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCGTCAAACTTGTGTACTGAGATAATTGAATATTCAAGTCCAACTGAAACTG
                            || || |||     ||      |  ||||||   | ||  || |   ||| ||      ||    | | |||||      | |  ||   | || ||||||| |||||||||||||| || || ||||||||||| ||||||||||| |||||||| || |||||||||||||| ||  |||| || ||||||||||
gtaaatttggtagcaaaattagtagcaaggagtacttgattttggacccaagattcctccaaatatgctgctggctatagtcaggttccaagtattcattccgaatgctcttgttgtcccac-agGATACATGCAATAGGAAAAGTAACCAGCAGAATTTGGGCACAATTAAATCTTCAAACTTATGCACTGAGATAATTGAGTACACAAGCCCTACTGAAACTG

upper sequence: GLYMA06G15350.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g56100.1 (Oryza sativa), 3'ss of exon 8
gtggtgttcttagatgtctttgactttcctcatgagattttgtatttattgttttcacc-cgttgagtaattccagcatttttgtttacactactagGATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCGTCAAACTTGTGTACTGAGATAATTGAATATTCAAGTCCAACTGAAACTG
              ||   || |        |    | ||||  |  | |  | |  || | |    | ||| | | | | | || | ||      |||| |||| ||||| ||||| || ||||| ||  |||| |||||||| || ||||||||||| || ||||| ||||| |   ||||||| ||||||||||
-----------gtgtgcaattcataaagggaacagtagtttgcctacaattctgttgccacatatgcttatttctgaaatctggtctgca------gGATTCTTGTAATAGAAAAAGTAACCAACAAAACCTGGGGACAATTAAGTCTTCAAACTTGTGCACGGAGATTATTGAGTTCACAAGTCCCACTGAAACTG

upper sequence: GLYMA06G15350.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G340527_T01 (Zea mays), 3'ss of exon 8
------gtggtg-ttcttagatgtctttgactttcctcatgagattttgtatttattgttttcacccgttgagtaattccagcattt-ttgtttacactac-tagGATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCGTCAAACTTGTGTACTGAGATAATTGAATATTCAAGTCCAACTGAAACTG
       | |||  | | | ||     |  ||    |  |    | || |    |  |||| ||   ||| || | |||  | | |   | || ||  ||   |||||||||||||||||||||| || || |||||| |||| ||||||||||||||||||||||| |||||||||||||| | | |||| || ||||||||||
gtacatttagtggctatcaaataggagtacctcctatttttgtctcttttgccaaaagtttcca---gttaaggatttcttgtaatggctattaactgtatgcagGATACTTGCAATAGGAAAAGTAACCAGCAGAATCTGGGCACAATTAAATCGTCAAACTTGTGCACTGAGATAATTGAGTTTACAAGCCCTACTGAAACTG

upper sequence: GLYMA06G15350.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G304362_T01 (Zea mays), 3'ss of exon 8
------gtggt-gttcttagatgtctttgactttcctcatgagattttgtatttattgttttcacccgttgagtaattccagcattt-ttgtttacactac-tagGATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCGTCAAACTTGTGTACTGAGATAATTGAATATTCAAGTCCAACTGAAACTG
       |||| | | | | ||     | || |||   ||  |  | | |    |   ||||| | || | ||   |||  | | |   | || ||  ||   |||||||||||||||||||||| || || |||||| |||| |||||||||||||||||| |||| ||||| |||||||| | | |||| || ||||| || |
gtacatttggtagctatcaaatagtagt-accttctagatttgtctgttttgccaaaattttc-cacggtaagggtttcttgtaatggctattaactgtatgcagGATACTTGCAATAGGAAAAGTAACCAGCAGAATCTGGGCACAATTAAATCGTCAAACCTGTGCACTGAAATAATTGAGTTTACAAGCCCTACTGAGACCG

upper sequence: GLYMA06G15350.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 8
-------gtggtgttcttagatgtctttgactttcctcatgagattttgtatttattgttttcacccgttgagtaattccagcatttttgtttacactact---agGATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCGTCAAACTTGTGTACTGAGATAATTGAATATTCAAGTCCAACTGAAACTG
        |    |   |  |      |  ||   | |||||   ||| |||||  || |||      |    |  |||   | ||||   |||| || ||   ||||| |||||||||  ||||| |||||||||||| ||||||| |||||||| |||||||| ||||||||||| ||||| ||  | ||| |   ||||||||
gtggtttataaattctatgcaaaatcatttctgctcccatgattctttttatttggtggtttatgttttaattttgttct--ctttttctcttacccttcttatagGATTCTTGCAATAAAAAAAGTAATCAACAGAATCTGGGTACCATTAAATCTTCAAACTTATGTACTGAGATCATTGAGTACACCAGTGCTGATGAAACTG

upper sequence: GLYMA06G15350.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S195_46V6.1 (Physcomitrella patens), 3'ss of exon 5
gtggtgttcttagatgtctttgac-tttcctcatgagattttgtatt---tattgttttcacccgttgagtaattccagcatttttgtttacactactagGATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCGTCAAACTTGTGTACTGAGATAATTGAATATTCAAGTCCAACTGAAACTG
||  | |  |  | ||| | |    ||||   |   ||||   ||       ||||  |  ||  | | |  | || ||| | | || |     |   ||||| ||||||| ||||||||||||||||||||  | || || || || || || ||  | || ||||||||  | || |   ||||||||  ||| || |
gtactttcttgtgctgtgtatattgtttcactacttgattccatacaagacgttgtccttgcctctggggataatcgagcttgtatggtgctgtttacagGATGCTTGCAACAGGAAAAGCAATCAACAGAACCTCGGGACCATCAAGTCATCGAATCTCTGCACTGAGATTGTGGAGTTCACAAGTCCAGATGAGACCG

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|193585204|gb|FK543853.1|FK543853
EST:     AAATTCTGAAGTCACAGATAGAAACCGGAACCCCCTACATGCTTTTTAAG                         GATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCG
genomic: AAATTCTGAAGTCACAGATAGAAACCGGAACCCCCTACATGCTTTTTAAGgtggtgttct ... acactactagGATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCG
EST: gi|193674411|gb|FK619925.1|FK619925
EST:     AAATTCTGAAGTCACAGATAGAAACCGGAACCCCCTACATGCTTTTTAAG                         GATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCG
genomic: AAATTCTGAAGTCACAGATAGAAACCGGAACCCCCTACATGCTTTTTAAGgtggtgttct ... acactactagGATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCG
EST: gi|193482200|gb|FK447935.1|FK447935
EST:     AAATTCTGAAGTCACAGATAGAAACCGGAACCCCCTACATGCTTTTTAAG                         GATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCG
genomic: AAATTCTGAAGTCACAGATAGAAACCGGAACCCCCTACATGCTTTTTAAGgtggtgttct ... acactactagGATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtatttattgttttcacccgttgagtaattccagcatttttgtttacactactagGATACTTGCAATAGGAAAAGCAATCAACAGAATTTGGGTACAATTAAATCGTCAAACTTGTGTACTGAGATAATTGAATATTCAAGTCCAACTGAAACTG
                                   atttttgttta  TA-rich tract