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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taacatgcttggttcattcccaaattctatatctgtttgctaatttgaagattgagaacaaagatagataatcttattattattgttgggtgttggttagATTGGAGGAACTAAGGTCAGAGTTGGGGGAATGGCAAAAGGTTCTGGAATGATCCACCCAAATATGGCTACCATGCTTGGG

Basic information

species Glycine max
transcript GLYMA13G19450.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G19450.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os03g17120.1 (Oryza sativa), 3'ss of exon 8
taacatgcttggttcattcccaaattctatatctgtttgctaatttgaagattgagaacaaagatagataatcttattattattgttgggtgttggttagATTGGAGGAACTAAGGTCAGAGTTGGGGGAATGGCAAAAGGTTCTGGAATGATCCACCCAAATATGGCTACCATGCTTGGG
     ||  |   | |  | |  ||| | | ||  |  | | |||||  | |||| |  |    |   |  |||||| ||   | ||        ||||||||||||||       ||| | | || |||||||| ||||||||||| ||||| || ||||||||||| || |||||||| 
--gtttgactttcttagcctcgtattat-tctcattaggtttatttg--gtttgacatta----tctttgttcttatcatctct-ttattgaaaagttagATTGGAGGAGTGCCTATCAAAATAGGAGGAATGGCCAAAGGTTCTGGGATGATTCATCCAAATATGGCAACAATGCTTGGT

upper sequence: GLYMA13G19450.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G044237_T01 (Zea mays), 3'ss of exon 7
taacatgcttggttcattcccaaattctatatctgtttgctaatttgaagattgagaacaaagatagataatcttattattattgttgggtgttggttagATTGGAGGAACTAAGGTCAGAGTTGGGGGAATGGCAAAAGGTTCTGGAATGATCCACCCAAATATGGCTACCATGCTTGGG
                         | |   ||| || | | | ||   | |        |   |  ||  || |||| || || |||         ||||||||||||       | ||| | || || ||||| ||||||||||||||||| |||||||||||||| || |||||||| 
------------------------gtttgagtctcttggtttacttattgttatttccttagattttattgtcatatttttttttttgttcaa-aactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATGATTCACCCAAATATGGCAACAATGCTTGGT

upper sequence: GLYMA13G19450.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv08s0040g03320.t01 (Vitis vinifera), 3'ss of exon 9
taacatgcttggttcattcccaaattctatatctgtttg---ctaatttgaagattgagaacaaag-atagataatcttattattattgttgggtgttggttagATTGGAGGAACTAAGGTCAGAGTTGGGGGAATGGCAAAAGGTTCTGGAATGATCCACCCAAATATGGCTACCATGCTTGGG
     | | ||    ||| ||||    | | |||| |      |   ||  |  |||  ||  ||| ||   | ||  | |  | ||| | |     ||   || ||||||| || ||  | |||||||||||||||||||| |||||||| |||||||| ||||||||||||||||||||||| 
-tcttttcctgtgaaattgccaatccatgtgtctgctcagacttccctttcattttgccaaggaagtatttgttattctgtc-tgattttggaaaaatg--cagGTTGGAGGGACAAATATTAGAGTTGGGGGAATGGCAAAGGGTTCTGGGATGATCCATCCAAATATGGCTACCATGCTTGGT

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|16277400|gb|BI942360.1|BI942360
EST:     CAATCACCACTACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTG                         ATTGGAGGAACTAAGGTCAGAGTTGGGGGAATGGCAAAAGGTTCTGGAATG
genomic: CAATCACCACTACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTGgtatttcttg ... tgttggttagATTGGAGGAACTAAGGTCAGAGTTGGGGGAATGGCAAAAGGTTCTGGAATG
EST: gi|16281999|gb|BI944782.1|BI944782
EST:     CAATCACCACTACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTG                         ATTGGAGGAACTAAGGTCAGAGTTGGGGGAATGGCAAAAGGTTCTGGAATG
genomic: CAATCACCACTACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTGgtatttcttg ... tgttggttagATTGGAGGAACTAAGGTCAGAGTTGGGGGAATGGCAAAAGGTTCTGGAATG
EST: gi|16277260|gb|BI942288.1|BI942288
EST:     CAATCACCACTACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTG                         ATTGGAGGAACTAAGGTCAGAGTTGGGGGAATGGCAAAAGGTTCTGGAATG
genomic: CAATCACCACTACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTGgtatttcttg ... tgttggttagATTGGAGGAACTAAGGTCAGAGTTGGGGGAATGGCAAAAGGTTCTGGAATG
EST: gi|192294186|gb|FG986275.1|FG986275
EST:     CAATCACCACTACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTG                         ATTGGAGGAACTAAGGTCAGAGTTGGGGGAATGGCAAAAGGTTCTGGAATG
genomic: CAATCACCACTACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTGgtatttcttg ... tgttggttagATTGGAGGAACTAAGGTCAGAGTTGGGGGAATGGCAAAAGGTTCTGGAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaagattgagaacaaagatagataatcttattattattgttgggtgttggttagATTGGAGGAACTAAGGTCAGAGTTGGGGGAATGGCAAAAGGTTCTGGAATGATCCACCCAAATATGGCTACCATGCTTGGG
           aacaaagatagataat  TA-rich tract