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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttaaaaaatataaatcttttgtaaaggtataatggtagatggacagtaaaaacatcaaattatctttttctgagttataaatttggcgattgtttgtagGTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCTTGGATCCCGTCAGTATTCTACCCCAGTTGATATTTGGTCAGTGGGATGCATATTTGCAGAGA

Basic information

species Glycine max
transcript GLYMA05G25320.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G25320.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g01850.2 (Oryza sativa), 3'ss of exon 4
---------------------------------cttaaaaaatataaatctttt-----gtaaaggtataatggtagatggacagtaaaaacatcaaattatctttttctgagttataaatttggcgattgtttgt-agGTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCTTGGATCCCGTCAGTATTCTACCCCAGTTGATATTTGGTCAGTGGGATGCATATTTGCAGAGA
                                  | | ||| || |  | ||||      ||||| |    |   |  |      |  | |||  |    ||    |    |   ||   | |||  | | ||| | |||| |||||  ||||||| |||||||| || ||  | ||||||||  | ||||||||||| ||||||||||| |||||||| || || || |||||||| |
gtactatagatttgtgttcaacattttgttttcttcataaagtacatttttttttcgtcataaagttcatttttcatttaccttttctatacactagcacattaactcacaatggatgtctatgggaagtatttttcagGTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAGTATTCTACACCAGTTGATATGTGGTCAGTTGGTTGTATCTTTGCAGAAA

upper sequence: GLYMA05G25320.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g02680.1 (Oryza sativa), 3'ss of exon 3
---------------------------------cttaaaaaatataaatctttt----gtaaaggtataatggtagatggacagtaaaaacatcaaattatctttttctgagttataaatttggcgattgtttgt-agGTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCTTGGATCCCGTCAGTATTCTACCCCAGTTGATATTTGGTCAGTGGGATGCATATTTGCAGAGA
                                  | | ||| || |  | ||||     ||||| |    |   |  |      |  | |||  |    ||    |    |   ||   | |||  | | ||| | |||| |||||  ||||||| |||||||| || ||  | ||||||||  | ||||||||||| ||||||||||| |||||||| || || || |||||||| |
gtactatagatttgtgttcaacattttgttttcttcataaagtacattttttttcgtcataaagttcatttttcatttaccttttctatacactagcacattaactcacaatggatgtctatgggaagtatttttcagGTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAGTATTCTACACCAGTTGATATGTGGTCAGTTGGTTGTATCTTTGCAGAAA

upper sequence: GLYMA05G25320.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G008327_T01 (Zea mays), 3'ss of exon 4
-------------------------------------------------------------------------cttaaaaaatataaatct------tttgtaaaggtataatggtagatggacagtaaaaacatcaaattatctttttctgagttataaattt--ggcgattgtttgtagGTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCTTGGATCCCGTCAGTATTCTACCCCAGTTGATATTTGGTCAGTGGGATGCATATTTGCAGAGA
                                                                             |||  |||  ||        ||| ||   | |||| | ||         |  | |  || | | |  ||  |      || | || |  ||   |  |||  |||| || ||| | |||||||||||||| |||||| |||||||| | || |||||||| || ||||||||| | ||||| ||||| || || ||||| || |
gtacatttgttatgctctaacttgagaaagggagtctgaattgtcctgttagggaaaaaaatattgtgagggatgccaaagttatggattcccacaatttttacccgaataacg-taaccttttgctgtatat-tctagtcacattaattcacagtacatatctatggaagtatttttcagGTAGTGACATTATGGTACAGAGCTCCAGAAATTCTGCTTGGAGCGCGGCAGTATTCCACACCAGTTGATGTGTGGTCTGTGGGCTGTATCTTTGCGGAAA

upper sequence: GLYMA05G25320.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G48750.1 (Arabidopsis thaliana), 3'ss of exon 5
cttaaaaaatataaatcttttgtaaaggtataatggtagatggacagtaaaaacatcaaattatctttttctgagttataaa---tttggcgattgtt--tgtagGTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCTTGGATCCCGTCAGTATTCTACCCCAGTTGATATTTGGTCAGTGGGATGCATATTTGCAGAGA
  |||   |  | ||  |  ||||||   ||| |  |  |||     |  | |  ||| ||    |  |  | | | | | |   ||||   ||||||  | ||||| || || || |||||| |||| || || ||  | || ||||| | ||| || ||||| || |||||||||||||| ||||| ||||||||||| ||||
agtaagctagttcaagatactgtaaa---atatt--tcaatgctacatccagatttcagatctcttcctggttattcacacaatttttgcatattgttcctttagGTTGTTACTCTCTGGTACCGAGCACCAGAGATACTCCTAGGATCTCATCATTACTCTACACCTGTTGATATTTGGTCTGTGGGGTGCATATTTGCTGAGA

upper sequence: GLYMA05G25320.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0045g00310.t01 (Vitis vinifera), 3'ss of exon 5
cttaaaaaatataaatcttttgtaaaggtataat--ggtagatggacagtaaaaacatcaaattatctttttctgagttataaat-ttggcgattgtttgtagGTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCTTGGATCCCGTCAGTATTCTACCCCAGTTGATATTTGGTCAGTGGGATGCATATTTGCAGAGA
    |     | | |||   | | | |   |  |  |||  |      |  |  |  ||  |||||  | |   |  | |||||  |||| | || |    ||||||| || |||||||||||||| || |||||  |||||||||| || || |||||||| || |||||| | ||||| ||||| || |||||||| ||||
---tacctccacagatcacatatgaggaatttgtttggtgaaccttttgataccatctctcattattatgtctgggttcataaacattggtggttctccccagGTGGTGACCCTGTGGTACAGAGCACCCGAAATACTGCTTGGATCACGCCACTATTCTACTCCTGTTGATGTGTGGTCTGTGGGCTGTATATTTGCTGAGA

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|19054013|gb|BM732680.1|BM732680
EST:     TTGGATTGGCCAGGGCTTTTGGAATTCCTGTTAGGACATTTACACATGAG                         GTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCTTGGATCCCGTCAG
genomic: TTGGATTGGCCAGGGCTTTTGGAATTCCTGTTAGGACATTTACACATGAGgtttgtgtgc ... ttgtttgtagGTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCTTGGATCCCGTCAG
EST: gi|51335099|gb|CO978965.1|CO978965
EST:     TTGGATTGGCCAGGGCTTTTGGAATTCCTGTTAGGACATTTACACATGAG                         GTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCTTGGATCCCGTCAG
genomic: TTGGATTGGCCAGGGCTTTTGGAATTCCTGTTAGGACATTTACACATGAGgtttgtgtgc ... ttgtttgtagGTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCTTGGATCCCGTCAG
EST: gi|16996519|gb|BM085891.1|BM085891
EST:     TTGGATTGGCCAGGGCTTTTGGAATTCCTGTTAGGACATTTACACATGAG                         GTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCTTGGATCCCGTCAG
genomic: TTGGATTGGCCAGGGCTTTTGGAATTCCTGTTAGGACATTTACACATGAGgtttgtgtgc ... ttgtttgtagGTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCTTGGATCCCGTCAG
EST: gi|193577454|gb|FK535767.1|FK535767
EST:     TTGGATTGGCCAGGGCTTTTGGAATTCCTGTTAGGACATTTACACATGAG                         GTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCT
genomic: TTGGATTGGCCAGGGCTTTTGGAATTCCTGTTAGGACATTTACACATGAGgtttgtgtgc ... ttgtttgtagGTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtaaaaacatcaaattatctttttctgagttataaatttggcgattgtttgtagGTGGTAACACTGTGGTACAGAGCTCCGGAAATTTTGCTTGGATCCCGTCAGTATTCTACCCCAGTTGATATTTGGTCAGTGGGATGCATATTTGCAGAGA
            aaattatctttttctg  TA-rich tract