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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATAGTGAGCCTGACATCATTGATGGTTTGGGTGCTGAGACTGGTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAGgtatcatacaactcttctggttactttaactattgactactaataactcctctgacataatttcttttgtttgagttttcag

Basic information

species Glycine max
transcript GLYMA16G00400.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G00400.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv12s0035g01060.t01 (Vitis vinifera), 5'ss of exon 2
GATAGTGAGCCTGACATCATTGATGGTTTGGGTGCTGAGACTGGTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAGgtatcatacaactcttct-----ggttactttaactattgactactaata-actcctctgacat-------aatttcttttgtttgagttttcag-------------------------------
||||| || ||||| || ||||||||| ||||||||||  | ||||| || |||||||| |   ||||||| ||||||||||||||||||||||||  |  ||| |    |     | ||||  ||  |   | | | ||| | |   |  | |  |       ||  ||||   |  || | |  |                                
GATAGCGAACCTGATATTATTGATGGTGTGGGTGCTGAAGCAGGTCATGTAATAAGAACAACTTTTGGTGGTCGAAATGGTCAATCTAAGCAGgtaggaagcaaattagtttgtaagattacaatatttgacgtcaattaacataaatcattaatgtcaaggtaaacatcttacataagaatatatatattttggaacatgtcatgtttggatttgcag
















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|213602199|gb|DB962692.1|DB962692
EST:     GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAG                         AATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
genomic: GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAGgtatcataca ... gagttttcagAATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
EST: gi|209717538|gb|BW679672.1|BW679672
EST:     GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAG                         AATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
genomic: GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAGgtatcataca ... gagttttcagAATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
EST: gi|207811805|gb|GD783054.1|GD783054
EST:     GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAG                         AATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
genomic: GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAGgtatcataca ... gagttttcagAATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
EST: gi|26047783|gb|CA784461.1|CA784461
EST:     GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAG                         AATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
genomic: GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAGgtatcataca ... gagttttcagAATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
EST: gi|26048721|gb|CA785174.1|CA785174
EST:     GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAG                         AATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
genomic: GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAGgtatcataca ... gagttttcagAATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
EST: gi|208296892|gb|GE096530.1|GE096530
EST:     GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAG                         AATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
genomic: GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAGgtatcataca ... gagttttcagAATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
EST: gi|4295066|gb|AI442280.1|AI442280
EST:     GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAG                         AATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
genomic: GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAGgtatcataca ... gagttttcagAATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
EST: gi|209719804|gb|BW674956.1|BW674956
EST:     GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAG                         AATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
genomic: GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAGgtatcataca ... gagttttcagAATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
EST: gi|20813050|gb|BQ297528.1|BQ297528
EST:     GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAG                         AATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
genomic: GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAGgtatcataca ... gagttttcagAATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
EST: gi|151403853|gb|EV273663.1|EV273663
EST:     GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAG                         AATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT
genomic: GTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAGgtatcataca ... gagttttcagAATGTTAGTTATATTTCTGAGCATGTTGTGGGAACAGGCTCTTTTGGTGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATAGTGAGCCTGACATCATTGATGGTTTGGGTGCTGAGACTGGTCACGTGATAAGAACCAGCGTTGGTGGCCGAAATGGTCAATCTAAGCAGgtatcatacaactcttctggttactttaactattgactactaataactcctctgacataatttcttttgtttgagttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG