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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaatcaggcccatggttctcttcagtgctcctcatgctggcttgtatgttttcatttatcttatccaaataatagattcttttggaattggatttgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCTTCTGATATACTTCTATATCAG

Basic information

species Glycine max
transcript GLYMA06G09240.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G09240.2 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g54020.2 (Oryza sativa), 3'ss of exon 6
taaatcaggcccatggttctcttcagtgctcc-tcatgctggcttgtatgttttcatttatcttatccaaata--atagattcttttggaattggatttgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCTTCTGATATACTTCTATATCAG
      |  |||     ||  |  |        |  | |||  |  |  ||  |  |||  |  ||    ||    | |  | | ||    |   |||| ||||| |||||| | ||||| || || |||||||||||||||||| | ||||||||||| || || || || |||
---gcaaaaccctcaactccttatatcatggtgttgtactgtttaatccgtcctattttggcaaatttttattttgttgggtttatttttttcttatttatagGGTGATGAAAATGTTGGAGTGGCACTTTTGACTTATCCTGTTTTAATGGCTTCTGACATTCTCCTGTACCAG

upper sequence: GLYMA06G09240.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G177970_T02 (Zea mays), 3'ss of exon 6
-taaatcaggcccatggttctcttcagtgctcctcatgctggcttgtatgttttcatttatctta---tccaaataatagattcttttggaattggatttgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCTTCTGATATACTTCTATATCAG
  |   ||        |    ||||| |||  || ||| ||  ||  || |||    ||     |   |    |||||||     ||    |||   ||  ||||| |||||| | ||||||||||| |||||||||||||||||||| ||||||||||| || ||| | || |||
agagtccattgttgcagaatccttcaatgc--cttatggtg--ttacatatttcagattgctgaaggttgactataatagtactgttgatgatttttttaatagGGTGATGAAAATGTTGGGGTTGCACTTTTGACTTATCCTGTTCTAATGGCTTCTGACATTCTTTTGTACCAG

upper sequence: GLYMA06G09240.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0008g00200.t01 (Vitis vinifera), 3'ss of exon 6
taaatcaggcccatggttctcttcagtgctcctcatgctggcttgtatgttttcatttatcttatccaaata-atagattcttttggaattg--gatttgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCTTCTGATATACTTCTATATCAG
||  |    |   |  |  ||     || |          || |   | || | | || ||   | | | || | |   | || |  ||||   | |||||||||||||||| | ||||||||||||||| |||||||||||||||| |||||||||||||| ||| ||||||||
tattttgcacttgtaatgttcaatcatggtttgagaatgagcat---tcttctaacttttccagtgccattacacaagatgttcttcaatttctgttttgtagGGAGATGAAAATGTTGGGGTTGCCCTTCTGACTTATCCTGTTCTCATGGCTTCTGATATTCTTTTATATCAG

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|193340093|gb|FK306300.1|FK306300
EST:     GGTTGGCTGAACAAAATGATACAATTTAAAGAGAAATCTCGACAAAGGCG                         GGAGATGAAGAAGTTGGG-TTGCCCTTTTGA
genomic: GGTTGGCTGAACAAAATGATACAATTTAAAGAGAAATCTCG-CAA-GGCGgtgcgttcat ... ggatttgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGA
EST: gi|23052815|gb|BU577306.1|BU577306
EST:     TTGGNTGGCTGAACAAAATGATACAATTTAAAGAGAAATCTCGCAAGGCG                         GGAGATGAATAAATTGGGGTTGCCCTTTTGACTTATCCTGNTCTGATGGCT
genomic: TTGGTTGGCTGAACAAAATGATACAATTTAAAGAGAAATCTCGCAAGGCGgtgcgttcat ... ggatttgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCT
EST: gi|23052769|gb|BU577260.1|BU577260
EST:     TTGGTTGGCTGAACAAAATGATACAATTTAAAGAGAAATCTCGCAAGGCG                         GGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCT
genomic: TTGGTTGGCTGAACAAAATGATACAATTTAAAGAGAAATCTCGCAAGGCGgtgcgttcat ... ggatttgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCT
EST: gi|193361959|gb|FK325595.1|FK325595
EST:     TTGGTTGGCTGAACAAAATGATACAATTTAAAGAGAAATCTCGCAAGGCG                         GGAGATGAAGAAGTTGGG-TTGCCCTTTTGA
genomic: TTGGTTGGCTGAACAAAATGATACAATTTAAAGAGAAATCTCGCAAGGCGgtgcgttcat ... ggatttgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgttttcatttatcttatccaaataatagattcttttggaattggatttgtagGGAGATGAAGAAGTTGGGGTTGCCCTTTTGACTTATCCTGTTCTGATGGCTTCTGATATACTTCTATATCAG
         atttatcttatccaaa  TA-rich tract