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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaattaacgaatcgctttcgtatttgtatcactctgattgttgaattgatttacctggttcgttataggataaattttcctgaattatagttatatgcgtgtgtatgtcgctgcagTTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAACCTGCAGCTCGAGGCGACGACGCAGTTCCGGAAGCTGCTTTCGATTG

Basic information

species Glycine max
transcript GLYMA20G38320.3
intron # 1
splice site 3'
intron type U2

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|8827761|gb|BE211491.1|BE211491
EST:     AACCTCAGCAGATACCTGCGTCCGTTCACTCTAGTTTGGTAGAGAAGAAG                         TTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAAC
genomic: AACCTCAGCAGATACCTGCGTCCGTTCACTCTAGTTTGGTAGAGAAGAAGgttaattaac ... gtcgctgcagTTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAAC
EST: gi|20811681|gb|BQ296159.1|BQ296159
EST:     AACCTCAGCAGATACCTGCGTCCGTTCACTCTAGTTTGGTAGAGAAGAAG                         TTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAAC
genomic: AACCTCAGCAGATACCTGCGTCCGTTCACTCTAGTTTGGTAGAGAAGAAGgttaattaac ... gtcgctgcagTTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAAC
EST: gi|15287171|gb|BI471062.1|BI471062
EST:     AACCTCAGCAGATACCTGCGTCCGTTCACTCTAGTTTGGTAGAGAAGAAG                         TTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAAC
genomic: AACCTCAGCAGATACCTGCGTCCGTTCACTCTAGTTTGGTAGAGAAGAAGgttaattaac ... gtcgctgcagTTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAAC
EST: gi|13480811|gb|BG510154.1|BG510154
EST:     AACCTCAGCAGATATCTGCGTCCGTTCACTCTAGTTTGGTAGAGAAGAAG                         TTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAAC
genomic: AACCTCAGCAGATACCTGCGTCCGTTCACTCTAGTTTGGTAGAGAAGAAGgttaattaac ... gtcgctgcagTTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAAC
EST: gi|15201183|gb|BI424737.1|BI424737
EST:     AACCTCAGCAGATACCTGCGTCCGTTCACTCTAGTTTGGTAGAGAAGAAG                         TTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAAC
genomic: AACCTCAGCAGATACCTGCGTCCGTTCACTCTAGTTTGGTAGAGAAGAAGgttaattaac ... gtcgctgcagTTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAAC
EST: gi|21286094|gb|BQ473965.1|BQ473965
EST:     AACCTCAGCAGATACCTGCGTCCGTTCACTCTAGTTTGGTAGAGAAGAAG                         TTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAAC
genomic: AACCTCAGCAGATACCTGCGTCCGTTCACTCTAGTTTGGTAGAGAAGAAGgttaattaac ... gtcgctgcagTTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttataggataaattttcctgaattatagttatatgcgtgtgtatgtcgctgcagTTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAACCTGCAGCTCGAGGCGACGACGCAGTTCCGGAAGCTGCTTTCGATTG
        ataaattttcctgaat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttaattaacgaatcgctttcgtatttgtatcactctgattgttgaattgatttacctggttcgttataggataaattttcctgaattatagttatatgcgtgtgtatgtcgctgcagTTGGAACACCTACCATCTATGGTTACTGGTGTTTGGACTGATGATAATAACCTGCAGCTCGAGGCGACGACGCAGTTCCGGAAGCTGCTTTCGATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT