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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTACCGTGACTTAAAGCCTGAAAATATCTTACTTCAGAAGGATGGTCATGTTGTATTAGCTGATTTTGATCTATCATATATGACATCTTGTAAACCACAGgtatgtttcctcattcctgaaaaaatggtccatttatataaattattgggaattcttgacccaactgaaattcgttggtgtcacacgtctccaatgatat...

Basic information

species Glycine max
transcript GLYMA16G19560.1
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G19560.1 (Glycine max), 5'ss of exon 19
lower sequence: Vv03s0038g04210.t01 (Vitis vinifera), 5'ss of exon 17
TTACCGTGACTTAAAGCCTGAAAATATCTTACTTCAGAAGGATGGTCATGTTGTATTAGCTGATTTTGATCTATCATATATGACATCTTGTAAACCACAGgtatgtttcctcattcctgaaaaaatggtccatttatataaattattgggaattcttgacccaactgaaattcgttgg---tgtcaca-cgtctccaatgatat----
||| || || || |||||||||||  |  |||| || |||||||| |||||||| |||||||| ||||||||||||   |||||||| |||||||| || ||||||  ||   |||   |   | | |     || |  |   | ||     || | |||  || || || |  |      ||| | | ||| | |||   ||     
TTATCGAGATTTGAAGCCTGAAAACGTGATACTGCAAAAGGATGGACATGTTGTCTTAGCTGACTTTGATCTATCACTGATGACATCCTGTAAACCTCAAgtatgtaaccattttc---agtcagttggatgcttgttcatcctttt-----ttttggacaaaattggaaattatccaacctgtaatagcgtgttcaagtttaatccc
















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|120530711|gb|EH258844.1|EH258844
EST:     TTGTATTAGCTGATTTTGATCTATCATATATGACATCTTGTAAACCACAG                         GTTGTGAAGCAAGCGATACCTGGTAAAAGAAGATCACGAAGTGAACCACCA
genomic: TTGTATTAGCTGATTTTGATCTATCATATATGACATCTTGTAAACCACAGgtatgtttcc ... tttcctgcagGTTGTGAAGCAAGCGATACCTGGTAAAAGAAGATCACGAAGTGAACCACCA
EST: gi|120530273|gb|EH258407.1|EH258407
EST:     TTGTATTAGCTGATTTTGATCTATCATATATGACATCTTGTAAACCACAG                         GTTGTGAAGCAAGCGATACCTGGTAAAAGAAGATCACGAAGCTGAA
genomic: TTGTATTAGCTGATTTTGATCTATCATATATGACATCTTGTAAACCACAGgtatgtttcc ... tttcctgcagGTTGTGAAGCAAGCGATACCTGGTAAAAGAAGATCACGAAG-TGAA
EST: gi|10845138|gb|BF068299.1|BF068299
EST:     TTGTATTAGCTGATTTTGATCTATCATATATGACATCTTGTAAACCACAG                         GTTGTGAAGCAAGCGATACCTGGTAAAAGAAGATCACGAAGTGAACCACCA
genomic: TTGTATTAGCTGATTTTGATCTATCATATATGACATCTTGTAAACCACAGgtatgtttcc ... tttcctgcagGTTGTGAAGCAAGCGATACCTGGTAAAAGAAGATCACGAAGTGAACCACCA
EST: gi|6481668|gb|AW200939.1|AW200939
EST:     GTAAACCACAG                         GTTGTTAAGCAAGCGATACCTGGCAAAAGAAGATCACGAAGTGAACCACCA
genomic: GTAAACCACAGgtatgtttcc ... tttcctgcagGTTGTGAAGCAAGCGATACCTGGTAAAAGAAGATCACGAAGTGAACCACCA
EST: gi|6482465|gb|AW201722.1|AW201722
EST:     TTGTGTTAGCTGATTTTGATCTATCATTTATGACATCTTGTAAACCCCAG                         GTTGTGAAGCAAGC-AGTACCTGGTAAAAGAAGATCACGAAGTGAACCACC
genomic: TTGTATTAGCTGATTTTGATCTATCATATATGACATCTTGTAAACCACAGgtatgtttcc ... tttcctgcagGTTGTGAAGCAAGCGA-TACCTGGTAAAAGAAGATCACGAAGTGAACCACC
EST: gi|23728010|gb|BU762049.1|BU762049
EST:     TTGTATTAGCTGATTTTGATCTATCATATATGACATCTTGTAAACCACAG                         GTTGTGAAGCAAGCGATACCTGGTAAAAGAAGATCACGAAGTGAACCACCA
genomic: TTGTATTAGCTGATTTTGATCTATCATATATGACATCTTGTAAACCACAGgtatgtttcc ... tttcctgcagGTTGTGAAGCAAGCGATACCTGGTAAAAGAAGATCACGAAGTGAACCACCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTACCGTGACTTAAAGCCTGAAAATATCTTACTTCAGAAGGATGGTCATGTTGTATTAGCTGATTTTGATCTATCATATATGACATCTTGTAAACCACAGgtatgtttcctcattcctgaaaaaatggtccatttatataaattattgggaattcttgacccaactgaaattcgttggtgtcacacgtctccaatgatat

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaaaaaa