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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACAAACCAACAATCCATCCCTCAAGACTTTTGCTTCCTTAAAACTTGCAATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAGgtatataagtgtataaccaaactcctaattaagtctactctctacctacacatcatttcttaatgaaacattaatatcattaattatcttatgctaaaat...

Basic information

species Glycine max
transcript GLYMA16G01550.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G01550.1 (Glycine max), 5'ss of exon 1
lower sequence: AT1G53903.1 (Arabidopsis thaliana), 5'ss of exon 1
AGACAAACCAA--CAATCCATCCCTCA-AGACTTTTGCTTCCTTAAAACTTGCAATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAGgtat-ataagtgtataaccaaactcctaattaagtctactctctacctacacatcatttcttaatgaaacattaatatcattaattatcttatgctaaaat---
    ||||| |  |||||||  | ||   ||  |||| ||||||||||| ||  |||| |||||||| || |||  || |||||||||| ||||||||||||||||  |||  | | |      | | |||  | | | |||||| |    ||  |  || |  |  |    | | | | ||| |  || | || || | |||    
---TAAACCGATCCAATCCAAACATCTCGGAGCTTTGTTTCCTTAAAACATGTCATCTCTGCAATAAACAACTCCATCAAGACAAAGATGTTTACATGTACAGgtacgatatttttttttttttattactatatta-tatactctttgtaaacgaaagatgttctgtt----cttgattctcaattttttttttttgttgaaaacag
















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|213590262|gb|DB963839.1|DB963839
EST:     AATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAG                         GGGAGATCAAGGCTTCTGCAGTGTAGAGTGCCGGAACAGACAAATAGTTTT
genomic: AATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAGgtatataagt ... ttttgtgcagGGGAGATCAAGGCTTCTGCAGTGTAGAGTGCCGGAACAGACAAATAGTTTT
EST: gi|10709972|gb|BF009696.1|BF009696
EST:     AATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAG                         GGGAGATCAAGGCTTCTGCAGTGTAGAGTGCCGGAACAGACAAATAGTTTT
genomic: AATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAGgtatataagt ... ttttgtgcagGGGAGATCAAGGCTTCTGCAGTGTAGAGTGCCGGAACAGACAAATAGTTTT
EST: gi|111037491|gb|DY577333.1|DY577333
EST:     AATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAG                         GGGAGATCAAGGCTTCTGCAGTGTAGAGTGCCGGAACAGACAAATAGTTTT
genomic: AATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAGgtatataagt ... ttttgtgcagGGGAGATCAAGGCTTCTGCAGTGTAGAGTGCCGGAACAGACAAATAGTTTT
EST: gi|18733820|gb|BM527829.1|BM527829
EST:     AATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAG                         GGGAGATCAAGGCTTCTGCAGTGTAGAGTGCCGGAACAGACAAATAGTTTT
genomic: AATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAGgtatataagt ... ttttgtgcagGGGAGATCAAGGCTTCTGCAGTGTAGAGTGCCGGAACAGACAAATAGTTTT
EST: gi|213590005|gb|DB981453.1|DB981453
EST:     AATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAG                         GGGAGATCAAGGCTTCTGCAGTGTAGAGTGCCGGAACAGACAAATAGTTTT
genomic: AATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAGgtatataagt ... ttttgtgcagGGGAGATCAAGGCTTCTGCAGTGTAGAGTGCCGGAACAGACAAATAGTTTT
EST: gi|192321360|gb|FK012121.1|FK012121
EST:     AATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAG                         GGGAGATCAAGGCTTTTGCAGTGTAGAGTGCCGGAACAGACAAATAGTTTT
genomic: AATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAGgtatataagt ... ttttgtgcagGGGAGATCAAGGCTTCTGCAGTGTAGAGTGCCGGAACAGACAAATAGTTTT
EST: gi|192321361|gb|FK012122.1|FK012122
EST:     AATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAG                         GGGAGATCAAGGCTTCTGCAGTGTAGAGTGCCGGAACAGACAAATAGTTTT
genomic: AATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAGgtatataagt ... ttttgtgcagGGGAGATCAAGGCTTCTGCAGTGTAGAGTGCCGGAACAGACAAATAGTTTT

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGACAAACCAACAATCCATCCCTCAAGACTTTTGCTTCCTTAAAACTTGCAATCTATGCAATAAGCAGCTCAGTCCAGACAAAGATATTTACATGTACAGgtatataagtgtataaccaaactcctaattaagtctactctctacctacacatcatttcttaatgaaacattaatatcattaattatcttatgctaaaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA