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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctgcatattactactactcttgctgattgatttattgagtttcctttagggttgtaatttattgaatttggaatttcttacgattagtattgtgtttgactaattacttattcttgtttgtcttctctttgtggtagGAATGCCAAGTTGATGGTGATACAAGCTCACTTTGGCACATTGCTAAAGCCATTCACAAACTTGAG

Basic information

species Glycine max
transcript GLYMA10G35210.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G35210.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv13s0019g04720.t01 (Vitis vinifera), 3'ss of exon 5
gtaagctgcatattactactactcttgctgattgatttattgagtttcctttagggttgtaatttattgaatttggaatttcttacgattagtattgtgtttgactaattacttattcttgtttgtcttctctttgtggtagGAATGCCAAGTTGATGGTGATACAAGCTCACTTTGGCACATTGCTAAAGCCATTCACAAACTTGAG
                                     ||| |||   | ||    | || | | |  |  ||||  | |||| |   |  ||  ||    |||     ||| ||  |        |  | | |   || |||||||||||||||||||| ||||||||||| |||||||| || || |||||||||||||||||||||
------------------------------------gtat-gagacacttt----gctgca-tctgatacatttcaattttcatttaa--agattttcccttggtctcttaattcctaagaaggattctttttgcttgatagGAATGCCAAGTTGATGGGGATACAAGCTCGCTTTGGCATATCGCAAAAGCCATTCACAAACTTGAG
















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|193358712|gb|FK328390.1|FK328390
EST:     TACCAATGGATGAGGATGTATTATCATTTGAACTTGATCTCTCTTACAAA                         GAATGCCAAGTTGATGGTGATACAAGCTCACTTTGGCACATTGCTAAAGCC
genomic: TACCAATGGATGAGGATGTATTATCATTTGAACTTGATCTCTCTTACAAAgtaagctgca ... tttgtggtagGAATGCCAAGTTGATGGTGATACAAGCTCACTTTGGCACATTGCTAAAGCC
EST: gi|213611506|gb|DB960786.1|DB960786
EST:     TACCAATGGATGAGGATGTATTATCATTTGAACTTGATCTCTCTTACAAA                         GAATGCCAAGTTGATGGTGATACAAGCTCACTTTGGCACATTGCTAAAGCC
genomic: TACCAATGGATGAGGATGTATTATCATTTGAACTTGATCTCTCTTACAAAgtaagctgca ... tttgtggtagGAATGCCAAGTTGATGGTGATACAAGCTCACTTTGGCACATTGCTAAAGCC
EST: gi|193640633|gb|FK591394.1|FK591394
EST:     TACCAATGGATGAGGATGTATTATCATTTGAACTTGATCTCTCTTACAAA                         GAATGCCAAGTTGATGGTGATACAAGCTCACTTTGGCACATTGCTAAAGCC
genomic: TACCAATGGATGAGGATGTATTATCATTTGAACTTGATCTCTCTTACAAAgtaagctgca ... tttgtggtagGAATGCCAAGTTGATGGTGATACAAGCTCACTTTGGCACATTGCTAAAGCC
EST: gi|207766199|gb|GD737729.1|GD737729
EST:     TACCAATGGATGAGGATGTATTATCATTTGAACTTGATCTCTCTTACAAA                         GAATGCCAAGTTAGAATAGGTAGATACAAGCTC
genomic: TACCAATGGATGAGGATGTATTATCATTTGAACTTGATCTCTCTTACAAAgtaagctgca ... tttgtggtagGAATGCCAAGTT-GA-T-GGT-GATACAAGCTC
EST: gi|207829470|gb|GD803598.1|GD803598
EST:     TACCAATGGATGAGGATGTATTATCATTTGAACTTGATCTCTCTTACAAA                         GAATGCCAAGTTGATGGTGATACAAGCTCACTTTGGCACATT
genomic: TACCAATGGATGAGGATGTATTATCATTTGAACTTGATCTCTCTTACAAAgtaagctgca ... tttgtggtagGAATGCCAAGTTGATGGTGATACAAGCTCACTTTGGCACATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attagtattgtgtttgactaattacttattcttgtttgtcttctctttgtggtagGAATGCCAAGTTGATGGTGATACAAGCTCACTTTGGCACATTGCTAAAGCCATTCACAAACTTGAG
               gactaat  putative branch site (score: 2)
                     ttacttattcttgttt  CT-rich tract
                  taattacttattctt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagctgcatattactactactcttgctgattgatttattgagtttcctttagggttgtaatttattgaatttggaatttcttacgattagtattgtgtttgactaattacttattcttgtttgtcttctctttgtggtagGAATGCCAAGTTGATGGTGATACAAGCTCACTTTGGCACATTGCTAAAGCCATTCACAAACTTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA