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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgctaaatcaggcccatgtttttcttcagtgctcctcatgctggcttgtatgttttcatttatccaaataatagattcttttggaattggatctgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCTTCTGATATACTTCTATATCAG

Basic information

species Glycine max
transcript GLYMA04G09130.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G09130.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g54020.2 (Oryza sativa), 3'ss of exon 6
tttgctaaa---tcaggcccatgtttttcttcagtgctcctcatgctggcttgtatgttttcatttatccaaataatagattcttttggaattggatctgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCTTCTGATATACTTCTATATCAG
   || |||   |||   || | | |        ||  |    |  |   |  ||| ||  ||  | |  |  |  | |  | | ||    |   || | ||||| |||||| | ||||| || || |||||||||||||||||| | ||||||||||| || || || || |||
---gcaaaaccctcaactccttatatcatggtgttgtactgtttaatccgtcctattttggcaaatttttattttgttgggtttatttttttcttatttatagGGTGATGAAAATGTTGGAGTGGCACTTTTGACTTATCCTGTTTTAATGGCTTCTGACATTCTCCTGTACCAG

upper sequence: GLYMA04G09130.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G177970_T02 (Zea mays), 3'ss of exon 6
tttgctaaatcaggcccatgtttttcttcagtgctcctcatgctggcttgtatgttttcatttatccaa--------ataatagattcttttggaattggatctgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCTTCTGATATACTTCTATATCAG
      |   ||           | ||||| |||  || ||| ||  ||  || |||    ||    ||        |||||||     ||    |||   |   ||||| |||||| | ||||||||||| |||||||||||||||||||| ||||||||||| || ||| | || |||
----agagtccattgttgcagaatccttcaatgc--cttatggtg--ttacatatttcagattgctgaaggttgactataatagtactgttgatgatttttttaatagGGTGATGAAAATGTTGGGGTTGCACTTTTGACTTATCCTGTTCTAATGGCTTCTGACATTCTTTTGTACCAG

upper sequence: GLYMA04G09130.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv04s0008g00200.t01 (Vitis vinifera), 3'ss of exon 6
tttgctaaatcaggcccatgtttttcttcagtgctcctcatgctggc----ttgtatgttttcatttatccaaataatagattcttttggaattg-gatctgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCTTCTGATATACTTCTATATCAG
     ||  |    |   |  | |||     || |          ||    || ||  |||||   |  |   | |  ||||  | ||  | ||  | | |||||||||||||| | ||||||||||||||| |||||||||||||||| |||||||||||||| ||| ||||||||
-----tattttgcacttgtaatgttcaatcatggtttgagaatgagcattcttctaacttttccagtgccattacacaagatgttcttcaatttctgttttgtagGGAGATGAAAATGTTGGGGTTGCCCTTCTGACTTATCCTGTTCTCATGGCTTCTGATATTCTTTTATATCAG

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|23063730|gb|BU578612.1|BU578612
EST:     TTGGGTGGCTGAACAAAATGATACAGTTTAAAGAGAAATCTCGCAAGGCG                         GGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCT
genomic: TTGGTTGGCTGAACAAAATGATACAGTTTAAAGAGAAATCTCGCAAGGCGgtgcgttcat ... ggatctgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCT
EST: gi|6482637|gb|AW201882.1|AW201882
EST:     TTGGTTGGCTGAACAAAATGATACAGTTTAAAGAGAAATCTCGCAAGGCG                         GGAGATGAAGAAGTTGGGGTTGCCCT
genomic: TTGGTTGGCTGAACAAAATGATACAGTTTAAAGAGAAATCTCGCAAGGCGgtgcgttcat ... ggatctgtagGGAGATGAAGAAGTTGGGGTTGCCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttgtatgttttcatttatccaaataatagattcttttggaattggatctgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCTTCTGATATACTTCTATATCAG
         ttttcatttatccaaa  TA-rich tract