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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGTGTGAGGAACTAATCAAAGAAGAGTTTGATGAGGAATGTAATTTTGATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGGgtgagattccttaaactatccccattctaatcttcggtgattatatctatgtatataatactacctctctttaaaggaaaacttttttattattatttca...

Basic information

species Glycine max
transcript GLYMA16G05180.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G05180.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv14s0068g01000.t01 (Vitis vinifera), 5'ss of exon 14
ATGGTGTGAGGAACTAATCAAAGAAGAGTTTGATGAGGAATGTAATTTTGATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGGgtgagattccttaaactatccccattctaatcttcggtgattatatctatgtatataatactacctctctttaaaggaaaacttttttattattatttca---
  ||||||||||||||||||||||||||||||  ||||| ||||||||||||||||||||||||||| | || |||||||| ||||| |||||| |||||||||| ||||||   |   ||  ||  | |     | | |||  |  || || |   || ||  |       |||  | |  |   ||  |    || |    
GCGGTGTGAGGAACTAATCAAAGAAGAGTTTGGGGAGGACTGTAATTTTGATGTGGATGATGCTGTTCAAAAGTTAGAGAAGTTAGGCATTGTTGCTCGGgtgaggttcctttttcgtgccttatgatcaggga-gataatt-cagtta-gtgtgctatcctttcatcacccaaaatagatttccattgattcagttcctggt
















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|209719205|gb|BW665873.1|BW665873
EST:     GATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGG                         GATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC
genomic: GATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGGgtgagattcc ... tggaattcagGATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC
EST: gi|51345191|gb|CO985924.1|CO985924
EST:     ATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGG                         GATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC
genomic: ATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGGgtgagattcc ... tggaattcagGATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC
EST: gi|7691356|gb|AW759414.1|AW759414
EST:     ATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGG                         GATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC
genomic: ATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGGgtgagattcc ... tggaattcagGATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC
EST: gi|22929716|gb|BU546855.1|BU546855
EST:     ATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGG                         GATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC
genomic: ATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGGgtgagattcc ... tggaattcagGATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC
EST: gi|22522206|gb|BU081017.1|BU081017
EST:     ATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGG                         GATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC
genomic: ATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGGgtgagattcc ... tggaattcagGATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC
EST: gi|193335332|gb|FK299346.1|FK299346
EST:     ATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGG                         GATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC
genomic: ATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGGgtgagattcc ... tggaattcagGATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC
EST: gi|209700074|gb|BW656230.1|BW656230
EST:     ATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGG                         GATTCTGTTGGTCGATATCAATGTGTCAGGCTAAAACGGGCAAATGAAATC
genomic: ATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGGgtgagattcc ... tggaattcagGATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC
EST: gi|22522886|gb|BU081697.1|BU081697
EST:     ATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGG                         GATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC
genomic: ATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGGgtgagattcc ... tggaattcagGATTCTGTTGGTCGATATCAATGTGTCGGGCTAAAACGGGCAAATGAAATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGGTGTGAGGAACTAATCAAAGAAGAGTTTGATGAGGAATGTAATTTTGATGTGGATGATGCTGTTGAGAAATTAGAGAAATTAGGAATTGTTACTCGGgtgagattccttaaactatccccattctaatcttcggtgattatatctatgtatataatactacctctctttaaaggaaaacttttttattattatttca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaggaaa