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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATTTTACTTGTAGCAAACAGATGCCTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaacattgtgctcatttcttcatctttttccttggaaccatcattttaatgcacttaaacaaatggttgttttgatttatttacag

Basic information

species Glycine max
transcript GLYMA09G40990.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G40990.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv10s0071g01100.t01 (Vitis vinifera), 5'ss of exon 6
GTATTTTACTTGTAGCAAACAGATGCCTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaacattgtgctc-atttcttcatctttttc------cttggaaccatcattttaatgcacttaaacaaat---ggttgttttgatttatttacag----------------------------------------------------
|||||||||||||||||||   ||||||||||| || |||||||||    ||||||||||||| ||||| |||||||||| |    | ||| ||  ||| |  ||| |  |        ||  |   |   ||| |  | ||   || |||      |  ||   ||| ||  |||                                                     
GTATTTTACTTGTAGCAAAACCATGCCTGGTTCACTGGGTCATGAGGAAAAAGATGCCAAGACCTTTGCTTCATGGgtatgactactagtgatctgtttatgtatcatacttaagtcatttacattaaatttttaagagaacacgaagaaaatagaataattacaattgatgaacattggttttggccattatataacaaaatcatgaagttatgctctttgtttgcag
















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|193510248|gb|FK467586.1|FK467586
EST:     CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
genomic: CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
EST: gi|213595971|gb|DB966274.1|DB966274
EST:     CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
genomic: CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
EST: gi|193308916|gb|FK276200.1|FK276200
EST:     CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCG
genomic: CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCG
EST: gi|208335402|gb|GE135937.1|GE135937
EST:     CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
genomic: CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
EST: gi|193335273|gb|FK297985.1|FK297985
EST:     CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCAAAACCA
genomic: CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
EST: gi|193391563|gb|FK356462.1|FK356462
EST:     CTGGTTCTCTTGGTCATGAGTTCCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
genomic: CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
EST: gi|193529172|gb|FK484363.1|FK484363
EST:     CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGAT
genomic: CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGAT
EST: gi|207805925|gb|GD779158.1|GD779158
EST:     CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCAAAACC
genomic: CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACC
EST: gi|207777548|gb|GD747509.1|GD747509
EST:     CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
genomic: CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
EST: gi|208317303|gb|GE113256.1|GE113256
EST:     CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
genomic: CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
EST: gi|208132100|gb|GD929011.1|GD929011
EST:     CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCAAAACCA
genomic: CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
EST: gi|208066793|gb|GD866480.1|GD866480
EST:     CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
genomic: CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
EST: gi|208329355|gb|GE131269.1|GE131269
EST:     TGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
genomic: TGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
EST: gi|193423091|gb|FK389318.1|FK389318
EST:     CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
genomic: CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
EST: gi|208267232|gb|GE065609.1|GE065609
EST:     GTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
genomic: GTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAACAATGATGGATCGAAACCA
EST: gi|213589246|gb|DB957778.1|DB957778
EST:     CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGG                         GGTATTGATTATTTGAAGTATGATAACTGTAAACA-TGATGGATCGAAACC
genomic: CTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaaca ... ttatttacagGGTATTGATTATTTGAAGTATGATAACTGTAA-CAATGATGGATCGAAACC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATTTTACTTGTAGCAAACAGATGCCTGGTTCTCTTGGTCATGAGTTTCAAGATGCCAAGACTTTTGCATCATGGgtattaaacattgtgctcatttcttcatctttttccttggaaccatcattttaatgcacttaaacaaatggttgttttgatttatttacag

- - - - - - - - - - - - - - - - - - - - - - - - - AAGATG