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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGTGGAAGAAATAGGAAAGTTGCTGAGGCTTATGCAAGGAATGGAGGGAAGAGgttgttttgtatttctttctcttttgttcatatttctagggagaggaaacgaaaatgtctgatttagttatatatttcctaattttctgcag

Basic information

species Glycine max
transcript GLYMA19G07410.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G07410.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv14s0219g00280.t01 (Vitis vinifera), 5'ss of exon 9
TGGGTGGAAGAAATAGGAAAGTTGCTGAGGCTTATGCAAGGAATGGAGGGAAGAGgttgttttgt-atttctttctcttttgttcatatttctagggagaggaaacgaaaatgtctgatttagttatatatttcctaattttc---tgcag
|||| |||||||| ||||||||||| ||||||| |||||||||||||||||| |||||  | | | ||   | | |||  ||  || |  |      |     | |  | | | |    ||  || ||   ||  | ||| |    |||||
TGGGAGGAAGAAACAGGAAAGTTGCAGAGGCTTTTGCAAGGAATGGAGGGAAAAGgttactctatgatagatatttctggtgcccaaaacttattccaagtatagcccagaggccca--ttgtttgtaaccttggtgattcttacatgcag
















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|209722143|gb|BW659334.1|BW659334
EST:     GGAAGAAATAGGAAAGTTGCTGAGGCTTATGCAAGGAATGGAGGGAAGAG                         GTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
genomic: GGAAGAAATAGGAAAGTTGCTGAGGCTTATGCAAGGAATGGAGGGAAGAGgttgttttgt ... ttttctgcagGTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
EST: gi|207825273|gb|GD795122.1|GD795122
EST:     TGCAAGGAATGGAGGGAAGAG                         G-CTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
genomic: TGCAAGGAATGGAGGGAAGAGgttgttttgt ... ttttctgcagGTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
EST: gi|7146181|gb|AW508166.1|AW508166
EST:     GGAAGAAATANGAAAGTTGCTGAGGCTTATGCAAGGAATGGAGGGAAGAG                         GTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
genomic: GGAAGAAATAGGAAAGTTGCTGAGGCTTATGCAAGGAATGGAGGGAAGAGgttgttttgt ... ttttctgcagGTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
EST: gi|207844343|gb|GD814388.1|GD814388
EST:     GCAAGGAATGGAGGGAAGAG                         G-CTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
genomic: GCAAGGAATGGAGGGAAGAGgttgttttgt ... ttttctgcagGTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
EST: gi|208079722|gb|GD875406.1|GD875406
EST:     TGCAAGGAATGGAGGGAAGAG                         G-CTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
genomic: TGCAAGGAATGGAGGGAAGAGgttgttttgt ... ttttctgcagGTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
EST: gi|31310804|gb|CD396007.1|CD396007
EST:     GGAGGGAAGAG                         TTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
genomic: GGAGGGAAGAGgttgttttgt ... ttttctgcagGTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
EST: gi|208321626|gb|GE120883.1|GE120883
EST:     AATGGAGGGAAGAG                         GTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
genomic: AATGGAGGGAAGAGgttgttttgt ... ttttctgcagGTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
EST: gi|208183540|gb|GD982868.1|GD982868
EST:     TGCAAGGAATGGAGGGAAGAG                         GTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
genomic: TGCAAGGAATGGAGGGAAGAGgttgttttgt ... ttttctgcagGTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
EST: gi|9983263|gb|BE657371.1|BE657371
EST:     GGAAGAAATAGGAAAGTTGCTGAGGCTTATGCAAGGAATGGAGGGAAGAG                         GTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
genomic: GGAAGAAATAGGAAAGTTGCTGAGGCTTATGCAAGGAATGGAGGGAAGAGgttgttttgt ... ttttctgcagGTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
EST: gi|208262470|gb|GE059229.1|GE059229
EST:     GCAAGGAATGGAGGGAAGAG                         GTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG
genomic: GCAAGGAATGGAGGGAAGAGgttgttttgt ... ttttctgcagGTCTTTTGATGAGCTTGAAGCAGAAATGCTACAAGGCCAGAAATTGCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGGTGGAAGAAATAGGAAAGTTGCTGAGGCTTATGCAAGGAATGGAGGGAAGAGgttgttttgtatttctttctcttttgttcatatttctagggagaggaaacgaaaatgtctgatttagttatatatttcctaattttctgcag

- -  GGAAGA
- - -  AAGAAA
- - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - GGAAGA