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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttttttctttcttcatatttggactcttttaagtatgctaaggtgttgtttgaccaaaagcatctcaataatttctttcagACTTTTATTGAACTATCTTTTATGGAAGCAGTACAAGGGTGCACCAAAACTTTGACATTTCAAACGGATGTGCTTTGTAATGCTTGTG

Basic information

species Glycine max
transcript GLYMA09G00580.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G00580.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G473367_T01 (Zea mays), 3'ss of exon 4
gtttttttctttcttcatatttggactcttttaagt---atgctaaggtgt--tgtttgaccaaaagcatc-tcaataatttctttcagACTTTTATTGAACTATCTTTTATGGAAGCAGTACAAGGGTGCACCAAAACTTTGACATTTCAAACGGATGTGCTTTGTAATGCTTGTG
              | || | ||  ||  ||| |||   |   |||| |||    | ||| |   ||   | |  ||    | | ||||  |    | |||||||| |||||||||||||| |||||||||| ||||||  | || || ||||||  |||    ||| |    ||||
-------------gtaatttctgcgctgattttagttgcacattaagttgtaccatgtgaactgcagttccattgattccatttctcagGTTGCACTCGAACTATCATTTATGGAAGCAGTTCAAGGGTGCAGCAAAACGGTCACCTTCCAAACGTCTGTAACATGTGAAATCTGTG

upper sequence: GLYMA09G00580.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv13s0064g01360.t01 (Vitis vinifera), 3'ss of exon 8
gtttttttctttcttcatatttggactcttt-taagtatgctaaggtgttgtttgaccaaaagcatctcaataatttctttc---agACTTTTATTGAACTATCTTTTATGGAAGCAGTACAAGGGTGCACCAAAACTTTGACATTTCAAACGGATGTGCTTTGTAATGCTTGTG
|||| | || | |   || |||  |   ||| |   | ||||   | |||   | |  || |     |   | |||  |      ||  ||  |||||||||||||| |||||||| || || || ||||| |||||| | ||||||||||| | | ||| |||| | |||||||
gtttctgtcctcccatattttttcatgatttctttttgtgcttcagagttacatcattaacatttcattttttattcatcatgatagGTTTCCATTGAACTATCTTTCATGGAAGCTGTCCAGGGATGCACTAAAACTGTAACATTTCAAACTGCTTTGCCTTGTGAAGCTTGTG
















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|192326652|gb|FK017309.1|FK017309
EST:     ATTTTGTCAAGAGCTTCTTCCATGAGAATATTGGTGGAGAGGATGTCAAG                         ACTTTTATTGAACTATCTTTTATGGAAGCAGTACAAGGGTGCACCAAAACT
genomic: ATTTTGTCAAGAGCTTCTTCCATGAGAATATTGGTGGAGAGGATGTCAAGgtttttttct ... tttctttcagACTTTTATTGAACTATCTTTTATGGAAGCAGTACAAGGGTGCACCAAAACT
EST: gi|7924054|gb|AW830062.1|AW830062
EST:     ATTTTGTCAAGAGCTTCTTCCATGAGAATATTGGTGGAGAGGATGTCAAG                         ACTTTTATTGAACTATCTTTTATGGAAGCAGTACAAGGGTGCACCAAAACT
genomic: ATTTTGTCAAGAGCTTCTTCCATGAGAATATTGGTGGAGAGGATGTCAAGgtttttttct ... tttctttcagACTTTTATTGAACTATCTTTTATGGAAGCAGTACAAGGGTGCACCAAAACT
EST: gi|7284029|gb|AW596629.1|AW596629
EST:     ATTTTGTCAAGAGCTTCTTCCATGAGAATATTGGTGGAGAGGATGTCAAG                         ACTTTTATTGAACTATCTTTTATGGAAGCAGTACAAGGGTGCACCAAAACT
genomic: ATTTTGTCAAGAGCTTCTTCCATGAGAATATTGGTGGAGAGGATGTCAAGgtttttttct ... tttctttcagACTTTTATTGAACTATCTTTTATGGAAGCAGTACAAGGGTGCACCAAAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttaagtatgctaaggtgttgtttgaccaaaagcatctcaataatttctttcagACTTTTATTGAACTATCTTTTATGGAAGCAGTACAAGGGTGCACCAAAACTTTGACATTTCAAACGGATGTGCTTTGTAATGCTTGTG
                     gtttgac  putative branch site (score: 4)
                                             tttctttc  putative PPT
                                      tcaataatttcttt  TA-rich tract