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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttctagttactaggccgcagctttccccatttttctttactattcttatatgtcctgttaagttcgcagaatgaattatttccacttccaaaa...

Basic information

species Glycine max
transcript GLYMA17G34990.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G34990.3 (Glycine max), 5'ss of exon 4
lower sequence: Vv04s0008g00650.t01 (Vitis vinifera), 5'ss of exon 4
GCATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagc-tttctagt---------------tactaggccgcagctttccccatttttctttactattcttatatgtcctgttaagttcgcagaatgaattatttccacttccaaaa
|||||||| ||||| |||||||||||| || |||| || ||||||||||| |||||| | | ||                 || ||      |    |    |   ||  |    |||  | ||| ||   | |  | |        ||||  ||   | |  |   
GCATTGTATTTTCAATTTGGCATCAAGCTGCACAATGTTGTGGATACCCAAgtgagcatctttaacaggaacaccatgatataataaatgataatgatttggacagttggtcgtgattgatgtatatcacttcagatactacttcgtaatttcttgtgcatgtag--
















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|209713753|gb|BW681879.1|BW681879
EST:     CATTGTACTTTCAGTTTGGCGTCAAGTTAAACAACGTAGTGGATACCCAG                         ATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
genomic: CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttc ... tttggttcagATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
EST: gi|193336183|gb|FK298083.1|FK298083
EST:     ATTATTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAG                         ATTGCTTATTCACTTATAGAG
genomic: ATTGT-ACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttc ... tttggttcagATTGCTTATTCACTTATAGAG
EST: gi|15663150|gb|BI700521.1|BI700521
EST:     CATTGTACTTTCAGTTTGGCATCAAGTTAAACAACGTAGTGGATACCCAG                         ATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
genomic: CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttc ... tttggttcagATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
EST: gi|254339165|gb|GR847882.1|GR847882
EST:     CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAG                         ATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
genomic: CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttc ... tttggttcagATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
EST: gi|20498112|gb|BQ273042.1|BQ273042
EST:     CATTGTACTTTCAGTTTGGCGTCAAGTTAAACAACGTAGTGGATACCCAG                         ATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
genomic: CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttc ... tttggttcagATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
EST: gi|33390324|gb|CA853519.1|CA853519
EST:     CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAG                         ATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
genomic: CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttc ... tttggttcagATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
EST: gi|208077136|gb|GD877815.1|GD877815
EST:     CATTATACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAG                         ATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
genomic: CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttc ... tttggttcagATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
EST: gi|18040715|gb|BM309009.1|BM309009
EST:     CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAG                         ATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
genomic: CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttc ... tttggttcagATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
EST: gi|298193107|gb|HO033541.1|HO033541
EST:     CATTGTACTTTCAGTTTGGCATCAAGTTAAACAACGTAGTGGATACCCAG                         ACTGCTTGTTCACTTATAGAG
genomic: CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttc ... tttggttcagATTGCTTATTCACTTATAGAG
EST: gi|192296230|gb|FG991556.1|FG991556
EST:     CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAG                         ATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
genomic: CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttc ... tttggttcagATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
EST: gi|209709559|gb|BW661886.1|BW661886
EST:     CATTGTACTTTCAGTTTGGCGTCAAGTTAAACAACGTAGTGGATACCCAG                         ATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
genomic: CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttc ... tttggttcagATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
EST: gi|298194665|gb|HO043137.1|HO043137
EST:     CATTGTACTTTCAGTTTGGCATCAAGTTAAACAACGTAGTGGATACCCAG                         ATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
genomic: CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttc ... tttggttcagATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
EST: gi|254336075|gb|GR841400.1|GR841400
EST:     CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAG                         ATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT
genomic: CATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttc ... tttggttcagATTGCTTATTCACTTATAGAGGAGCAAGAAGGACGAAAGAGATTGCGAGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCATTGTACTTTCAGTTTGGCATCAAGTTGAACAACGTAGTGGATACCCAGgtgagctttctagttactaggccgcagctttccccatttttctttactattcttatatgtcctgttaagttcgcagaatgaattatttccacttccaaaa

- - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttcccc