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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtagtcatcaaaagttgatagttgattttgattaaattatctccagaatttaagcatctttgtctatgcagGTTGGAGCCTTTTCTGTTTTGAAAGAACTTGTGGTTGTATTGCCCAACTGTCTTGCAGACCATATTGGGTCACTCATTCCAGGAATTGAAAAAGCATTAA

Basic information

species Glycine max
transcript GLYMA07G40230.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G40230.2 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os02g07120.1 (Oryza sativa), 3'ss of exon 12
gtagtagtcatcaaaagttgatagttgattttgattaaattatctccagaatttaagcatctttgtctatgcagGTTGGAGCCTTTTCTGTTTTGAAAGAACTTGTGGTTGTATTGCCCAACTGTCTTGCAGACCATATTGGGTCACTCATTCCAGGAATTGAAAAAGCATTAA
   ||   |      | |    |  | || |  ||  |  |   ||  || ||||   |   ||       ||||||||||| || ||||| ||||| || ||||| |||||| ||||  |||||||||| || ||||||||||||||  |||| || ||||| || || || |
---gtgagctctttgact--gcaaatcatgtctatcgacctggttct-gattttagataaaattt------cagGTTGGAGCATTCTCTGTATTGAAGGAGCTTGTTGTTGTACTGCCAGACTGTCTTGCTGATCATATTGGGTCACTTGTTCCTGGGATTGAGAAGGCTTTGA

upper sequence: GLYMA07G40230.2 (Glycine max), 3'ss of exon 13
lower sequence: AT2G02560.1 (Arabidopsis thaliana), 3'ss of exon 12
gtagtagtcatcaaaagttgatagttgattttgattaaattatctccaga-atttaagcatctttgtctat----gcagGTTGGAGCCTTTTCTGTTTTGAAAGAACTTGTGGTTGTATTGCCCAACTGTCTTGCAGACCATATTGGGTCACTCATTCCAGGAATTGAAAAAGCATTAA
      ||    ||  ||| |   ||  ||||| ||   ||       || | ||    | |||  |  ||    | |||||||||| || |||||||||| |||||||||||||||  ||||  |||||||||| || |||||||| |||||  |||| ||||||||||  ||  |||
------gtatgaaagtgttaaacattctttttggtttggttcctgtttgatactttcataacttctttcatatctgtagGTTGGAGCATTCTCTGTTTTGAGAGAACTTGTGGTTGTCCTGCCTGACTGTCTTGCTGATCATATTGGTTCACTTGTTCCTGGAATTGAAAGGGCGCTAA

upper sequence: GLYMA07G40230.2 (Glycine max), 3'ss of exon 13
lower sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 13
gtagtagtcatcaaaagttgatagttgattttgattaaattatctccagaatttaagcatctttgtc-tatgcagGTTGGAGCCTTTTCTGTTTTGAAAGAACTTGTGGTTGTATTGCCCAACTGTCTTGCAGACCATATTGGGTCACTCATTCCAGGAATTGAAAAAGCATTAA
|||  |||   |  |  ||  |        |   | |  | | |    ||| || | |||   | || | |||||||||| || ||||| ||||||||||| ||||||||||| |||||  |||| || |||||||| ||||| ||||| ||| | ||||| ||||||||  |||
gtacgagtttcctgatattcttttaaaggatctgtgatgtaaccattggaaatttaacattcatttcatctgcagGTTGGTGCATTTTCAGTTTTGAAAGAGCTTGTGGTTGTCTTGCCAGACTGCCTGGCAGACCACATTGGATCACTTATTTCGGGAATCGAAAAAGCGCTAA

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|208119686|gb|GD920209.1|GD920209
EST:     TTGTCAAATCTATAAATAGGCAGTTGCGTGAGAAATCTATCAAGACAAAG                         GTTGGAGCCTTTTCTGTTTTGAAAGAACTTGTGGTTGTATTGCCCAACTGT
genomic: TTGTCAAATCTATAAATAGGCAGTTGCGTGAGAAATCTATCAAGACAAAGgtagtagtca ... gtctatgcagGTTGGAGCCTTTTCTGTTTTGAAAGAACTTGTGGTTGTATTGCCCAACTGT
EST: gi|207703777|gb|GD684423.1|GD684423
EST:     TTGTCAAATCTATAAATAGGCAGTTGCGTGAGAAATCTATCAAGACAAAG                         GTTGGAGCCTTTTCTGTTTTGAAAGAACTTGTGGTTGTATTGCCCAACTGT
genomic: TTGTCAAATCTATAAATAGGCAGTTGCGTGAGAAATCTATCAAGACAAAGgtagtagtca ... gtctatgcagGTTGGAGCCTTTTCTGTTTTGAAAGAACTTGTGGTTGTATTGCCCAACTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatagttgattttgattaaattatctccagaatttaagcatctttgtctatgcagGTTGGAGCCTTTTCTGTTTTGAAAGAACTTGTGGTTGTATTGCCCAACTGTCTTGCAGACCATATTGGGTCACTCATTCCAGGAATTGAAAAAGCATTAA
         ttttgat  putative branch site (score: 4)
                                        tctttgtct  putative PPT
     ttgattttgattaaat  TA-rich tract