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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGGAGATGGAACGCGTCTTCGAGTTTCCTCACACTCACATGGATCGGCGCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAGgtaactttttgatcctaaaatctcagatctgatttttttcttcttcttgttttgcggttttatcttttctggttgtagatctggtgggatttgtgtagat...

Basic information

species Glycine max
transcript GLYMA17G13440.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G13440.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv17s0000g09500.t01 (Vitis vinifera), 5'ss of exon 1
CATGGAGATGGAACGCGTCTTCGAGTTTCCTCACACTCACATGGATCGGCGCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCC---CTGAGGTCCCCAAGgtaactt-tttgatcctaaaatctcagatctg----atttttttcttcttcttgttttgcggttttatcttttctggttgtagatctggtgggatttgtgtagat
| | |||| ||||| ||||||||||||||| ||||||||||| || ||||| ||||| || | ||||| ||||| | | || ||| || |||||| | | || || | || | |||| || ||||| || ||||| | | ||| | |||| |||||| | || | | | | ||||||
---GATGGTGGAGCGCGTGACCGAGTTTCCTCACACGCACATGGATCGCCGGCCGAGGAAGAGGCCGCGTTTGGGATGGGATGTTCTTCCTCAGGCTCCGAAGgtatcagatctgctcttgttatttaagatttgtccgattttgttgttcttttggctttttg-ttttgctagatctggt-gaagcttctttagattgtgtgta---
















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|209715198|gb|BW668526.1|BW668526
EST:     GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAG                         GCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
genomic: GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAGgtaacttttt ... ctgtgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
EST: gi|192295348|gb|FG986002.1|FG986002
EST:     GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAG                         GCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
genomic: GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAGgtaacttttt ... ctgtgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
EST: gi|208156834|gb|GD956304.1|GD956304
EST:     GCCCGAGAAAGGGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAG                         GCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
genomic: GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAGgtaacttttt ... ctgtgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
EST: gi|207714419|gb|GD695898.1|GD695898
EST:     GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAG                         GCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
genomic: GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAGgtaacttttt ... ctgtgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
EST: gi|6454636|gb|AW185319.1|AW185319
EST:     GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAG                         GCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
genomic: GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAGgtaacttttt ... ctgtgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
EST: gi|15286579|gb|BI470470.1|BI470470
EST:     GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAG                         GCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
genomic: GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAGgtaacttttt ... ctgtgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
EST: gi|17022467|gb|BM093501.1|BM093501
EST:     GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAG                         GCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
genomic: GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAGgtaacttttt ... ctgtgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
EST: gi|23064326|gb|BU579099.1|BU579099
EST:     GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAG                         GCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
genomic: GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAGgtaacttttt ... ctgtgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
EST: gi|9901661|gb|BE610629.1|BE610629
EST:     GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAG                         GCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
genomic: GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAGgtaacttttt ... ctgtgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
EST: gi|23064408|gb|BU579181.1|BU579181
EST:     GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAG                         GCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT
genomic: GCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAGgtaacttttt ... ctgtgtgtagGCTCAGGTAGGATTGTTTTGTGGACAAGATGTTGGGACTATTTCAAGCTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATGGAGATGGAACGCGTCTTCGAGTTTCCTCACACTCACATGGATCGGCGCCCGAGAAAGAGAGCGAGATTGGGCTGGGACATCCCTGAGGTCCCCAAGgtaactttttgatcctaaaatctcagatctgatttttttcttcttcttgttttgcggttttatcttttctggttgtagatctggtgggatttgtgtagat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA