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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcaggttatgttgcttgtcttgaaaagtttgcttcttcctaattcttggtggcattttcaagggaatagttgtcttactgtattctgcattacacatgtcagGTTGTCTATGTTGGAGATGGAAATAATATTGTTCACTCATGGTTGTTGATGGCATCTGTAATTCCGTTTCACTTTGTCTGTGCGTGTCCTAAAGGATTTG

Basic information

species Glycine max
transcript GLYMA04G03280.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G03280.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g47590.1 (Oryza sativa), 3'ss of exon 3
gtcaggttatgttgcttgtcttgaaaagtttgcttcttcctaattcttggtggcattttcaagggaatagttgtcttactgtattctgcattacacatgtcagGTTGTCTATGTTGGAGATGGAAATAATATTGTTCACTCATGGTTGTTGATGGCATCTGTAATTCCGTTTCACTTTGTCTGTGCGTGTCCTAAAGGATTTG
   || | || |       | | |  |     | | |         || ||   ||| |     || || || ||    | |||| |  || |        ||||||||||||||||||| || || |||||||| ||||||||| |     ||||  || || |||| || || ||||| ||||| |||||||| || || |
-gtagatcatttattgcaccctaaggaaccaccatgtaatcttgctttagta-tattat-----gactaattttcaacttttattgt-tatga--------agGTTGTCTATGTTGGAGACGGGAACAATATTGTCCACTCATGGCTTCGATTGGCTGCTTTATTTCCTTTACATTTTGTATGTGCCTGTCCTAAGGGCTTCG

upper sequence: GLYMA04G03280.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G050371_T01 (Zea mays), 3'ss of exon 3
gtcaggttatgttgcttgtcttgaaaagtttg-cttcttcctaattcttggtggcattttcaagggaatagttgtcttactgtattctgcattacacatgtcagGTTGTCTATGTTGGAGATGGAAATAATATTGTTCACTCATGGTTGTTGATGGCATCTGTAATTCCGTTTCACTTTGTCTGTGCGTGTCCTAAAGGATTTG
||    | ||    ||    |      ||||| | | |  |||||| |  ||      |||  ||   ||        | ||| |||| |  |   | |   |||||||||||||||||||||| || || ||||| ||||||||| || |  ||||  ||||  |||| ||||||||||| ||||| ||||| || |||||||
gtagaatcataacactgaattaactgtgtttggcctgtgtctaattttgagt------ttctgggttgtaacca----attgtcttcttcgat-tgcgttgtagGTTGTCTATGTTGGAGATGGGAACAACATTGTGCACTCATGGCTGCTATTGGCTGCTGTGCTTCCTTTTCACTTTGTATGTGCTTGTCCCAAGGGATTTG

upper sequence: GLYMA04G03280.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G157210_T01 (Zea mays), 3'ss of exon 6
gtcaggttatgttgcttgtcttgaaaagtttg-cttcttcctaattcttggtggcattttcaagggaatagttgtcttactgtattctgcattacacatgtcagGTTGTCTATGTTGGAGATGGAAATAATATTGTTCACTCATGGTTGTTGATGGCATCTGTAATTCCGTTTCACTTTGTCTGTGCGTGTCCTAAAGGATTTG
||    | ||    ||    |      ||||| | | |  |||||| |  ||      |||  ||   ||        | ||| |||| |  |   | |   |||||||||||||||||||||| || || ||||| ||||||||| ||||  ||||   |||  |||| ||||||||||| ||||| ||||| || |||||||
gtagaatcataacactgaattatctgcgtttgacctgtgtctaattttgagt------ttctgggttgtaacca----attgtcttcttcgat-tgcgttgtagGTTGTCTATGTTGGAGATGGGAACAACATTGTGCACTCATGGCTGTTATTGGCTGATGTGCTTCCTTTTCACTTTGTATGTGCTTGTCCCAAGGGATTTG

upper sequence: GLYMA04G03280.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G349547_T01 (Zea mays), 3'ss of exon 3
gtcaggttatgttgcttgtcttgaaaagtttg-cttcttcctaattcttggtggcattttcaagggaatagttgtcttactgtattctgcattacacatgtcagGTTGTCTATGTTGGAGATGGAAATAATATTGTTCACTCATGGTTGTTGATGGCATCTGTAATTCCGTTTCACTTTGTCTGTGCGTGTCCTAAAGGATTTG
||    | ||    ||    |      ||||| | | |  |||||| |  ||      ||   ||   ||        | ||| |||| |  |   | |   |||||||||||||||||||||| || || ||||| ||||||||| || |  ||||   |||  |||| ||||||||||| ||||| ||||| || |||||||
gtagaatcataacactgaattatctgcgtttgacctgtgtctaattttgagt------ttttgggttgtaacca----attgtcttcttcgat-tgcgttgtagGTTGTCTATGTTGGAGATGGGAACAACATTGTGCACTCATGGCTGCTATTGGCTGATGTGCTTCCTTTTCACTTTGTATGTGCTTGTCCCAAGGGATTTG

upper sequence: GLYMA04G03280.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G046748_T02 (Zea mays), 3'ss of exon 4
gtcaggttatgttgcttgtcttgaaaagtttgcttcttcctaattcttggtggcattttcaagggaatagttgtcttactgtattctgcattacacatgtcagGTTGTCTATGTTGGAGATGGAAATAATATTGTTCACTCATGGTTGTTGATGGCATCTGTAATTCCGTTTCACTTTGTCTGTGCGTGTCCTAAAGGATTTG
   || | ||  |        ||||     ||| | | |   || | |      | |||| ||        || |  ||||  |||| || |     ||| |||||||||||||||||||||| || || ||||| ||||| ||| |  |  ||||  ||||| |||| ||||||||||| ||||| ||||| || |||||||
-gtagatcatcgtatca---ctgaagtaactgcatgtgctctatgcgtc----taatttcgagatgggttctgaccaactgccttcttcaat---tgtgt-agGTTGTCTATGTTGGAGATGGGAACAACATTGTGCACTCGTGGCTTCTATTGGCTGCTGTACTTCCTTTTCACTTTGTATGTGCTTGTCCCAAGGGATTTG

upper sequence: GLYMA04G03280.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G062142_T01 (Zea mays), 3'ss of exon 5
gtcaggttatgttgcttgtcttgaaaagtttgcttcttcctaattcttggtggcattttcaagggaatagttgtcttactgtattctgcattacacatgtcagGTTGTCTATGTTGGAGATGGAAATAATATTGTTCACTCATGGTTGTTGATGGCATCTGTAATTCCGTTTCACTTTGTCTGTGCGTGTCCTAAAGGATTTG
||    | ||    ||    |      |||||     |    ||| |||     | ||||  ||   ||        | ||| |||| |  |  || |   |||||||||||||||||||||| || || ||||| ||||||||| || |  ||||   |||  |||| ||||||||||| ||||| ||||| || |||||||
gtagaatcataacactgaattatccgcgtttgacctgtgtctatttttg-----agtttctgggttgtaacca----attgtcttcttcgat-tacgttgtagGTTGTCTATGTTGGAGATGGGAACAACATTGTGCACTCATGGCTGCTATTGGCTGTTGTGCTTCCTTTTCACTTTGTATGTGCTTGTCCCAAGGGATTTG

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|193472338|gb|FK436137.1|FK436137
EST:     CTGATGCCCTTACCATGGTTGAGCACATTGGTCGGTTTGAAGGTACAAAG                         GTTGTCTATGTTGGAGATGGAAATAATATTGTTCACTCATGGTTGTTGATG
genomic: CTGATGCCCTTACCATGGTTGAGCACATTGGTCGGTTTGAAGGTACAAAGgtcaggttat ... cacatgtcagGTTGTCTATGTTGGAGATGGAAATAATATTGTTCACTCATGGTTGTTGATG
EST: gi|26058799|gb|CA801713.1|CA801713
EST:     CTGATGCCCTTACCATGGTTGAGCACATTGGTCGGTTTGAAGGTACAAAG                         GTTGTCTATGTTGGAGATGGAAATAATATTGTTCACTCATGGTTGTTGATG
genomic: CTGATGCCCTTACCATGGTTGAGCACATTGGTCGGTTTGAAGGTACAAAGgtcaggttat ... cacatgtcagGTTGTCTATGTTGGAGATGGAAATAATATTGTTCACTCATGGTTGTTGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtggcattttcaagggaatagttgtcttactgtattctgcattacacatgtcagGTTGTCTATGTTGGAGATGGAAATAATATTGTTCACTCATGGTTGTTGATGGCATCTGTAATTCCGTTTCACTTTGTCTGTGCGTGTCCTAAAGGATTTG
                        gtcttac  putative branch site (score: 3)
      attttcaa  TA-rich tract