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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGGGCAACGCAAAGTGTGGGTCTACTATCCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttccttcctttaatgtttacatacgtaacaatggatgtgttctgctttcatatttttatttagtttccttttctttgcag

Basic information

species Glycine max
transcript GLYMA16G24450.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G24450.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv04s0023g02740.t01 (Vitis vinifera), 5'ss of exon 7
CCGGGCAACGCAAAGTGTGGGTCTACTATCCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttccttcctttaatgttta------catacgtaacaatggatgtgttctgctttcatatttt-tatttagtttccttttctttgcag
||| ||||| || ||  | || ||  |||||||||| || ||||| ||||||||||| || |||||  |||||||||||||||   |   |    ||| | || |      | |  |   |   | || |  ||    |    || || | |  | ||||  || |  || ||
CCGAGCAACACAGAGCATTGGCCTTTTATCCTATACATTCTTGCGGAGAACTGGGCAGGACGATGTTATTGTTCCAATGgtgattctctttgttcttagtattaagttgttcttttgagccttagcattttatccatctgtgcatcttatttccattttcacttcccctgtag
















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|208133381|gb|GD929088.1|GD929088
EST:     CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATG                         ATAGATTTTGACATATCTGGTCATTGGGCTAAGCCAATTATTTATAGCTCA
genomic: CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|193302464|gb|FK267850.1|FK267850
EST:     CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATG                         ATAGATTTTGACACATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
genomic: CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|207784186|gb|GD755039.1|GD755039
EST:     CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATG                         ATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
genomic: CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|193375638|gb|FK341695.1|FK341695
EST:     CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATG                         ATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
genomic: CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|207772650|gb|GD744446.1|GD744446
EST:     CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATG                         ATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
genomic: CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|208242910|gb|GE041544.1|GE041544
EST:     CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATG                         ATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
genomic: CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|193471804|gb|FK434833.1|FK434833
EST:     CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATG                         ATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
genomic: CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|193551643|gb|FK506846.1|FK506846
EST:     CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATG                         ATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
genomic: CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|193481340|gb|FK447831.1|FK447831
EST:     CTATACCTTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATG                         ATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
genomic: CTATACC-TTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|207777800|gb|GD749763.1|GD749763
EST:     ATGATGTAGTTGTTCCAATG                         ATAGATTTTGACATATCTGGTCATAGGGCTGAGCCAATTATTTATAGCTCA
genomic: ATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|193708757|gb|FK648551.1|FK648551
EST:     CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAANG                         ATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
genomic: CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|193331997|gb|FK301969.1|FK301969
EST:     CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATG                         ATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
genomic: CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|193642573|gb|FK591535.1|FK591535
EST:     CCTGTACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATG                         ATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
genomic: CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|208029404|gb|GD827862.1|GD827862
EST:     CTATACCTTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATG                         ATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
genomic: CTATACC-TTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|208060882|gb|GD858792.1|GD858792
EST:     CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATG                         ATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
genomic: CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
EST: gi|193605607|gb|FK559035.1|FK559035
EST:     CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATG                         ATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA
genomic: CCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttc ... ttctttgcagATAGATTTTGACATATCTGGTCATTGGGCTGAGCCAATTATTTATAGCTCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCGGGCAACGCAAAGTGTGGGTCTACTATCCTATACCTTTTTGCGTAGAACTGGGCAAGATGATGTAGTTGTTCCAATGgtgacatttccttcctttaatgtttacatacgtaacaatggatgtgttctgctttcatatttttatttagtttccttttctttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG