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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCTAGTACTGAGAGAGATTCCTGAAGATGGAGTTAGGAAGCTCCTATCCAATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAGgtgaccactggtattaaaatcattatacgataaaagttgtagattatctttgttacagaactactatgaaaaatactttggtcgcatttgaagtttccaa...

Basic information

species Glycine max
transcript GLYMA20G37730.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G37730.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv14s0128g00400.t01 (Vitis vinifera), 5'ss of exon 13
ATCTAGTACTGAGAGAGATTCCTGAAGATGGAGTTAGGAAGCTCCTATCCAATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAGgtgaccac----tggtattaaaatcattatacgataaaagttgtagattatctttgttacagaactactatgaaaaatactttggtcgcatttgaagtttccaa
  || |||||| | |||||  |||||||||||||||||||||| ||||| || |  || ||||||||  | ||||| |||||| | |||||  ||||||||| || |     | || || | ||  |  ||    | |  || |  ||  | |  || | || | |   ||     ||  |||  | |  ||| || |||    
CCCTTGTACTGCGGGAGATAGCTGAAGATGGAGTTAGGAAGCTGCTATCTAAAAGAGACTCTTTGGCAGCTTGTGATATTGCACTATTTGTGTATGACAGgtaactaagacgttgttttgatattttcctagagcatatttttttaat--tttaagtcagagtattgaaatagctgattttttatttgtttttaaaatttta--
















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|12691474|gb|BG157810.1|BG157810
EST:     CTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAG                         GTCTGATGAATCCTCATGGAGAACATCGTCCGAACTCTTGGTTGAAATTGC
genomic: CTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAGgtgaccactg ... ttcatttcagGTCTGATGAATCCTCATGGAGAACATCGTCCGAACTCTTGGTTGAAATTGC
EST: gi|193376741|gb|FK340936.1|FK340936
EST:     AATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAG                         GTCTGATGAATCCTCATGGAGAACATCGTCCGAACTCTTGGTTGAAATTGC
genomic: AATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAGgtgaccactg ... ttcatttcagGTCTGATGAATCCTCATGGAGAACATCGTCCGAACTCTTGGTTGAAATTGC
EST: gi|5606725|gb|AI900823.1|AI900823
EST:     AATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAG                         GTCTGATGAATCCTCATGGAGAACATCGTCCGAACTCTTGGTTGAAATTGC
genomic: AATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAGgtgaccactg ... ttcatttcagGTCTGATGAATCCTCATGGAGAACATCGTCCGAACTCTTGGTTGAAATTGC
EST: gi|254338165|gb|GR845521.1|GR845521
EST:     AATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAG                         GTCTGATGAATCCTCATGGAGAACATCGTCCGAACTCTTGGTTGAAATTGC
genomic: AATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAGgtgaccactg ... ttcatttcagGTCTGATGAATCCTCATGGAGAACATCGTCCGAACTCTTGGTTGAAATTGC
EST: gi|193313676|gb|FK280527.1|FK280527
EST:     AATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAG                         GTCTGATGAATCCTCATGGAGAACATCGTCCGAACTCTTGGTTGAAATTGC
genomic: AATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAGgtgaccactg ... ttcatttcagGTCTGATGAATCCTCATGGAGAACATCGTCCGAACTCTTGGTTGAAATTGC
EST: gi|12773933|gb|BG238860.1|BG238860
EST:     AATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAG                         GTCTGATGAATCCTCATGGAGAACATCGTCC
genomic: AATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAGgtgaccactg ... ttcatttcagGTCTGATGAATCCTCATGGAGAACATCGTCC
EST: gi|254344505|gb|GR851202.1|GR851202
EST:     AATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAG                         GTCTGATGAATCCTCATGGAGAACATCGTCCGAACTCTTGGTTGAAATTGC
genomic: AATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAGgtgaccactg ... ttcatttcagGTCTGATGAATCCTCATGGAGAACATCGTCCGAACTCTTGGTTGAAATTGC
EST: gi|298168984|gb|HO020288.1|HO020288
EST:     AATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAG                         GTCTGATGAATCCTCATGGAGAACATCGTCCGAACTC
genomic: AATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAGgtgaccactg ... ttcatttcagGTCTGATGAATCCTCATGGAGAACATCGTCCGAACTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCTAGTACTGAGAGAGATTCCTGAAGATGGAGTTAGGAAGCTCCTATCCAATAAGGAGTCTTTGGCCTCATGTGACATTGCAGTTTTTGTTCATGACAGgtgaccactggtattaaaatcattatacgataaaagttgtagattatctttgttacagaactactatgaaaaatactttggtcgcatttgaagtttccaa

- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaaata