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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtggatactgagttactgataataataactcctttgttcaatcacactacagtggccaattgtaaaaacagaaagttttttttttcctgagcttttcagGTTATTGCAAACCGAGCAGCAGAGATTCTTGGCCATAAGCGCGGTGGGAAGTTCGTGCACCCAAATGACCATGTCAATAGATCGCAGTCTTCTAATGATA

Basic information

species Glycine max
transcript GLYMA10G02040.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G02040.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g21950.1 (Oryza sativa), 3'ss of exon 3
tgtggatactgagttactgataataataactcctttgttcaatcacactacagtggccaattgtaaaaacagaaagtttttt-ttttcctgagcttttcagGTTATTGCAAACCGAGCAGCAGAGATTCTTGGCCATAAGCGCGGTGGGAAGTTCGTGCACCCAAATGACCATGTCAATAGATCGCAGTCTTCTAATGATA
  |  ||  ||  ||| |  | ||  ||||     |||    | |   |    |     | ||||| | |  |   ||| |  | | | |  ||  || |||||||||||||  | || || ||||||||||| |||||||| || | |||||| || ||||| ||||| ||||| || ||||| ||||| || |||||||
attttatcatgt-ttaattctcatgttaacattactgtgagctaagtttgtgttattatactgtaatatcttaccatttctgatctgcttttgcaatttagGTTATTGCAAATAGGGCCGCTGAGATTCTTGGACATAAGCGTGGCGAGAAGTTTGTACACCCTAATGATCATGTGAACAGATCACAGTCCTCAAATGATA

upper sequence: GLYMA10G02040.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G010823_T01 (Zea mays), 3'ss of exon 3
tgtggatactg--agttactgataataataactcctttgttcaatcacactacagtggccaattgtaa-aaacagaaagttttttttttcctgagcttttcagGTTATTGCAAACCGAGCAGCAGAGATTCTTGGCCATAAGCGCGGTGGGAAGTTCGTGCACCCAAATGACCATGTCAATAGATCGCAGTCTTCTAATGATA
|     | |||  || || || | ||   || |   ||||  |   |   | |    ||||| |||   | |  |    |  | | ||| | ||    ||||||| ||||||||  | ||| | ||||| ||||| || |||||||||| |||||| |||||||||||||||||||| ||||| || || ||||| |||||||
tagttttcctgtaagctaatgttcatgtgaattttattgtgaacctatcatgcttctgccaactgtgctatattgtttatgatctcttttccgaa---ttcagGTAATTGCAAATAGGGCATCTGAGATCCTTGGACACAAGCGCGGTGAGAAGTTTGTGCACCCAAATGACCATGTGAATAGGTCACAATCTTCAAATGATA

upper sequence: GLYMA10G02040.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G348729_T01 (Zea mays), 3'ss of exon 6
tgtggatactg--agttactgataataataactcctttgttcaatcacactacagtggccaattgtaa-aaacagaaagttttttttttcctgagcttttcagGTTATTGCAAACCGAGCAGCAGAGATTCTTGGCCATAAGCGCGGTGGGAAGTTCGTGCACCCAAATGACCATGTCAATAGATCGCAGTCTTCTAATGATA
|     | |||  || || || | ||   || |   || |  |   |   |      ||||  |||   | |  |    |  | | ||| | ||    ||||||| ||||||||  | ||| | ||||| ||||| || ||| |||||  |||||| |||||||||||||||||||| ||||| || || ||||| |||||||
tagttttcctgtaagctaatgttcatgtgaattttattatgaacctagcatgtttctgccagctgtgctatattgtttatgatctcttttccgaa---ttcagGTAATTGCAAATAGGGCATCTGAGATCCTTGGACACAAGGGCGGTCAGAAGTTTGTGCACCCAAATGACCATGTGAATAGGTCACAATCTTCAAATGATA

upper sequence: GLYMA10G02040.2 (Glycine max), 3'ss of exon 3
lower sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 4
----------tgtggatactgag----ttactgataataataactcctttgttcaatcacactacagtggccaattgtaaaaacagaaagtttttttttt----------cctgagcttttcagGTTATTGCAAACCGAGCAGCAGAGATTCTTGGCCATAAGCGCGGTGGGAAGTTCGTGCACCCAAATGACCATGTCAATAGATCGCAGTCTTCTAATGATA
          ||  | |  ||||     |  |||  ||   |     | |    |   |||  | |  |||    |||  |          |||| ||||            ||  |||  ||||| ||||| ||  ||||||| ||||||||||| |  || || |||| ||| |  |||||||||||||||||||| || ||||| || |||||||| || |
gtaatttctttgcagtttttgagacatctgttgaggatctcattgtatatagctagctacaagagaa-ggctttctgtttatgttttttcattttcttttggccttgttatttgctcttcacagGTCATTGCTAATAGAGCAGCTGAGATTCTTGGTCGCAAACGTGGTGAGAAATGTGTGCACCCAAATGACCATGTGAACAGATCACAATCTTCTAACGACA

upper sequence: GLYMA10G02040.2 (Glycine max), 3'ss of exon 3
lower sequence: AT5G50950.3 (Arabidopsis thaliana), 3'ss of exon 2
-----tgtggatactgagt-tactgataataataactcctttgttcaatcacactacagtggccaattgtaaaaacagaaagttttttttttcctgagcttttcagGTTATTGCAAACCGAGCAGCAGAGATTCTTGGCCATAAGCGCGGTGGGAAGTTCGTGCACCCAAATGACCATGTCAATAGATCGCAGTCTTCTAATGATA
      ||  | ||| | |  | ||  || ||| | |  || | | | | |  |  |||  | |    ||||    | | || |  |||| | ||    ||| ||||| ||||| ||  ||||||| ||||||||||| || || || ||||  ||  | |||||||||||||||||||| || ||||| || ||||||||||| |
ttaagagttaagactaattacaatgtcaaaaatgattttttagat-acttaaccaccagacgtccgaggtaa--ttaaacagatcattttgtgct---ttttacagGTCATTGCCAATAGAGCAGCTGAGATTCTTGGTCACAAACGTGGTGAAAAAATTGTGCACCCAAATGACCATGTGAACAGATCACAATCTTCTAATGACA

upper sequence: GLYMA10G02040.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 4
tgtggatactgagttactga--taataataactcctttgttcaatcacactacagtggccaattgtaaaaacagaaagttttttttttcctgagcttttcagGTTATTGCAAACCGAGCAGCAGAGATTCTTGGCCATAAGCGCGGTGGGAAGTTCGTGCACCCAAATGACCATGTCAATAGATCGCAGTCTTCTAATGATA
   ||||   |  ||  |    ||  ||        ||||    |      |        | || |    |     | ||| ||||||    |   |  ||||||||||||||  ||||||| ||||||||||||||| |||| ||||  || |  ||||| |||||||||||||| || ||||| || |||||||||||||
-caggatttagtattctttgcctacgaactgtatacttgtcatttttggtgatgaatattacttctttttatttgga-tttattttttatcaactgtggcagGTTATTGCAAATAGAGCAGCTGAGATTCTTGGCCATCAGCGTGGTGAAAAATATGTGCATCCAAATGACCATGTTAACAGATCACAATCTTCTAATGATA

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|207773634|gb|GD746158.1|GD746158
EST:     TTGTATGGCAAACTGGCAGTGGCACTCAAAGTAACATGAATGCTAACGAG                         GTTATTGCAAACCGAGCAGCAGAGATTCTTGGCCATAAGCGCGGTGGGAAG
genomic: TTGTATGGCAAACTGGCAGTGGCACTCAAAGTAACATGAATGCTAACGAGgttagttact ... agcttttcagGTTATTGCAAACCGAGCAGCAGAGATTCTTGGCCATAAGCGCGGTGGGAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactacagtggccaattgtaaaaacagaaagttttttttttcctgagcttttcagGTTATTGCAAACCGAGCAGCAGAGATTCTTGGCCATAAGCGCGGTGGGAAGTTCGTGCACCCAAATGACCATGTCAATAGATCGCAGTCTTCTAATGATA
                               ttttttttttcctgag  CT-rich tract
             aattgtaaaaacagaa  TA-rich tract