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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcggcaaatgttaattgttagtttgttagagaatactagtgattgcgattcgaaaacactaacaatgtccgttttaagatgagactcataattaataagtacatgaatagttaattatccgtaattgattgttgtgtgtgtgtgtgtgtttgtgcagGTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAACCCTATGCGGTGCCCTGGAGCGCTTCATTTTTCGGAGAGGAACGACACCG

Basic information

species Glycine max
transcript GLYMA06G20360.2
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|193680201|gb|FK625325.1|FK625325
EST:     TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAG                         GTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
genomic: TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAGgtatcggcaa ... gtttgtgcagGTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
EST: gi|213593761|gb|DB957881.1|DB957881
EST:     TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAG                         GTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
genomic: TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAGgtatcggcaa ... gtttgtgcagGTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
EST: gi|207808150|gb|GD780123.1|GD780123
EST:     CCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAG                         GTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
genomic: TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAGgtatcggcaa ... gtttgtgcagGTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
EST: gi|193701731|gb|FK639541.1|FK639541
EST:     TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAG                         GTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
genomic: TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAGgtatcggcaa ... gtttgtgcagGTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
EST: gi|193499599|gb|FK458384.1|FK458384
EST:     TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAG                         GTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
genomic: TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAGgtatcggcaa ... gtttgtgcagGTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
EST: gi|207796148|gb|GD771415.1|GD771415
EST:     TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAG                         GTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
genomic: TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAGgtatcggcaa ... gtttgtgcagGTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
EST: gi|213589222|gb|DB957754.1|DB957754
EST:     TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAG                         GTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
genomic: TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAGgtatcggcaa ... gtttgtgcagGTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
EST: gi|193525774|gb|FK481181.1|FK481181
EST:     CGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCCTCCCTCCAAG                         GTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
genomic: CGCCCGCATCATGAACAACAACCCCGGCCGCCCCAT-CCCTCCCTCCAAGgtatcggcaa ... gtttgtgcagGTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
EST: gi|213614646|gb|DB972858.1|DB972858
EST:     TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAG                         GTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC
genomic: TCGCCCGCATCATGAACAACAACCCCGGCCGCCCCATCCCTCCCTCCAAGgtatcggcaa ... gtttgtgcagGTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaatagttaattatccgtaattgattgttgtgtgtgtgtgtgtgtttgtgcagGTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAACCCTATGCGGTGCCCTGGAGCGCTTCATTTTTCGGAGAGGAACGACACCG
                    aattgat  putative branch site (score: 4)
     tagttaattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatcggcaaatgttaattgttagtttgttagagaatactagtgattgcgattcgaaaacactaacaatgtccgttttaagatgagactcataattaataagtacatgaatagttaattatccgtaattgattgttgtgtgtgtgtgtgtgtttgtgcagGTGAAGTCTTTTAAGGAAAAGAGTGAAGTGGATGCGTGGCTTCTCAGCAACCCTATGCGGTGCCCTGGAGCGCTTCATTTTTCGGAGAGGAACGACACCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA